A short presentation describing a new participatory method that easily engages course participants in gamestorming and helps to consolidate new knowledge, by collectively agreeing on ways to place concepts in mind maps.
"Key-terms" is a classroom game that can be played in a variety of contexts,...
Keywords: http://www.mygoblet.org/topic-tags/instruction, http://www.mygoblet.org/topic-tags/training, http://www.mygoblet.org/topic-tags/education
"Key-terms", a learning game for conceptual consolidation
http://www.mygoblet.org/training-portal/materials/key-terms-learning-game-conceptual-consolidation
https://tess.elixir-europe.org/materials/key-terms-a-learning-game-for-conceptual-consolidation
A short presentation describing a new participatory method that easily engages course participants in gamestorming and helps to consolidate new knowledge, by collectively agreeing on ways to place concepts in mind maps.
"Key-terms" is a classroom game that can be played in a variety of contexts, from group discussions to several forms of Non-Formal learning (e.g. training) events. It helps a lot in engaging a small audience, following any wrap-up (recapitulation) session. Learners capture terms that they find conceptually important and contribute to a merged list. Then they are invited to pin these terms on a cork board in specified ways, such as placing related terms together (clustering), placing high order terms above lower order ones, etc. The instructor/facilitator can intervene at several levels in minimal, non-disturbing interventions, that help to contextualise what is happening. A depiction of how concepts are perceived in a class emerges quickly. This is, in practice, a visual concept map. The technique is being tested in the context of technical training provision, with the help of IT.
Pedro Fernandes
http://www.mygoblet.org/topic-tags/instruction, http://www.mygoblet.org/topic-tags/training, http://www.mygoblet.org/topic-tags/education
Educators
Trainers
Ontologists
2014-07-06
2017-05-25
Installation and configuration of NGiNX for Galaxy
(Proxy) Web Server Choices and Configuration
https://igbmc.github.io/egdw2017/day4/admin/04-web-server/index.html
https://tess.elixir-europe.org/materials/proxy-web-server-choices-and-configuration
Installation and configuration of NGiNX for Galaxy
Stéphanie Le Gras
Galaxy, NGiNX
EBI metagenomics (EMG, https://www.ebi.ac.uk/metagenomics/) is a freely available hub for the analysis and exploration of metagenomic, metatranscriptomic, amplicon and assembly data. The resource provides rich functional and taxonomic analyses of user-submitted sequences, as well as analysis of...
200 billion sequences and counting: analysis, discovery and exploration of datasets with EBI Metagenomics
http://www.france-bioinformatique.fr/sites/default/files/videos/scorms/metagenomics16/session_7/200_billions_sequences_and_counting_discovery_and_exploration_of_datasets_with_EBI_metagenomics/scormcontent/index.html
https://tess.elixir-europe.org/materials/200-billion-sequences-and-counting-analysis-discovery-and-exploration-of-datasets-with-ebi-metagenomics-ea1b32d5-b113-436c-a7da-8c7d29648d36
EBI metagenomics (EMG, https://www.ebi.ac.uk/metagenomics/) is a freely available hub for the analysis and exploration of metagenomic, metatranscriptomic, amplicon and assembly data. The resource provides rich functional and taxonomic analyses of user-submitted sequences, as well as analysis of publicly available metagenomic datasets held within the European Nucleotide Archive (ENA). EMG has recently undergone rapid expansion, with an over 10-fold increase in data volumes in the first 5 months of 2016. It now houses ~ 50k publicly available data sets, and represents one of the largest collections of analysed metagenomic data. As its data content has grown, EMG has increasingly become a platform for data discovery. To support this process, we have made a series of user-interface improvements, including the classification of projects by biome, presentation of results data for better visualisation and more convenient download, and provision of project level summary files. More recently, we have indexed project metadata for use with the EBI search engine, enabling exploration across different datasets. For example, users are able to search with a particular taxonomic lineage or protein function and discover the projects, samples and sequencing runs in which that lineage or function is found. This functionality allows users to explore associations between biomes, environmental conditions and organisms and functions (e.g., discovering protein coding sequences that correspond to certain enzyme families found in aquatic environments at a given temperature range). Here, we give an overview of the EMG data analysis pipeline and web site, and illustrate the use of the new search facility for data discovery.
Alex Mitchell
metagenomics
2016-12-16
2017-01-11
Two-dimensional electrophoresis is a well known method for protein separation which is extremely useful in the field of proteomics. The basic idea is to separate proteins contained in a sample using two independent properties such isoelectric point and mass. In the gel, each spot represents a...
Keywords: Electrophoresis
2D gel electrophoreses (DIGE)
http://www.sbedu.eu/index.php/17-2d-gel-electrophoreses-dige
https://tess.elixir-europe.org/materials/2d-gel-electrophoreses-dige
Two-dimensional electrophoresis is a well known method for protein separation which is extremely useful in the field of proteomics. The basic idea is to separate proteins contained in a sample using two independent properties such isoelectric point and mass. In the gel, each spot represents a protein accumulation and its size depends on the amount of protein present in the sample.
Administrator
Electrophoresis
2014-01-26
2017-05-09
This document is the trainee exercise booklet for a 3 day hands-on Next Generation Sequencing workshop developed by Bioplatforms Australia, CSIRO and EMBL-EBI. This workshop is aimed at bench biologists, PhD students or early career postdoctoral researchers or those new to the analysis of NGS...
Scientific topics: Sequencing
Keywords: http://www.mygoblet.org/topic-tags/rnaseq, http://www.mygoblet.org/topic-tags/de-novo-genome-assembly, http://www.mygoblet.org/topic-tags/chipseq, http://www.mygoblet.org/topic-tags/ngs
3-day hands-on NGS workshop
http://www.mygoblet.org/training-portal/materials/3-day-hands-ngs-workshop
https://tess.elixir-europe.org/materials/3-day-hands-on-ngs-workshop
This document is the trainee exercise booklet for a 3 day hands-on Next Generation Sequencing workshop developed by Bioplatforms Australia, CSIRO and EMBL-EBI. This workshop is aimed at bench biologists, PhD students or early career postdoctoral researchers or those new to the analysis of NGS data and assumes no prior knowledge of bioinformatics. This course covers the following topics: data quality control, read alignment, ChIPSeq, RNASeq and de novo assembly. The workshop starts with the Intro to the shell material from Software Carpentry (http://software-carpentry.org/v4/shell/index.html). Introductory lectures on each topic are presented before trainees move on that topic. The workshop has been delivered a number of times in different cities in Australia to date, in a roadshow style, and is designed to run on virtual machines on the Australian research cloud. Trainees then use NoMachine NX client to provide a remote desktop like connection to their own dedicated VM for the duration of of the workshop. Various contributors made this workshop possible and they are credited in the introduction to each section.
Annette McGrath
Sequencing
http://www.mygoblet.org/topic-tags/rnaseq, http://www.mygoblet.org/topic-tags/de-novo-genome-assembly, http://www.mygoblet.org/topic-tags/chipseq, http://www.mygoblet.org/topic-tags/ngs
PhD students
Life Science Researchers
postdocs
Bench biologists
2014-01-17
2017-05-25
Administration of Galaxy Servers (setting up, Docker use, databases, ...) can be a complex task
Admin-Corner - Docker and Galaxy
http://galaxyproject.github.io/training-material/Admin-Corner/slides/#1
https://tess.elixir-europe.org/materials/admin-corner-introduction
Administration of Galaxy Servers (setting up, Docker use, databases, ...) can be a complex task
Björn Grüning
maintainer2
Administration of Galaxy Servers (setting up, Docker use, databases, ...) can be a complex task
Admin-Corner - Galaxy Database schema
http://galaxyproject.github.io/training-material/Admin-Corner/tutorials/Database_Schema
https://tess.elixir-europe.org/materials/admin-corner-galaxy-database-schema
Administration of Galaxy Servers (setting up, Docker use, databases, ...) can be a complex task
Björn Grüning
maintainer2
Administration of Galaxy Servers (setting up, Docker use, databases, ...) can be a complex task
Admin-Corner - Move from dev instance to production instance
http://galaxyproject.github.io/training-material/Admin-Corner/tutorials/dev_to_production
https://tess.elixir-europe.org/materials/admin-corner-move-from-dev-instance-to-production-instance
Administration of Galaxy Servers (setting up, Docker use, databases, ...) can be a complex task
Björn Grüning
maintainer2
This course follows on from the introductory course. It goes into more detail on practical guides to filtering and combining complex data sets. It also looks at other core R concepts such as looping with apply statements and using packages. Finally it looks at how to document your R analyses and...
Keywords: R programming, Babraham Institute
Advanced R
http://www.bioinformatics.babraham.ac.uk/training.html#radvanced
https://tess.elixir-europe.org/materials/advanced-r
This course follows on from the introductory course. It goes into more detail on practical guides to filtering and combining complex data sets. It also looks at other core R concepts such as looping with apply statements and using packages. Finally it looks at how to document your R analyses and generate complete analysis reports.
Simon Andrews
R programming, Babraham Institute
The aim of this course is to help computational biologists with complex data analysis problems.
After discussing the theoretical foundations, the course will provide practical advice
on how to use the presented methodogies with R.
Advanced regression methods
http://biocomp.vbcf.ac.at/training/biostat/advregr.html
https://tess.elixir-europe.org/materials/advanced-regression-methods
The aim of this course is to help computational biologists with complex data analysis problems.
After discussing the theoretical foundations, the course will provide practical advice
on how to use the presented methodogies with R.
Bettina Grün
2017-05-25
Introduction to short-read alignments, including a general overview of existing methods (Burrow-Wheeler-Transform, Maximum Mappable Prefix, _etc._) and some cautionary tales.
Scientific topics: RNA-Seq
Keywords: BAM, Populus-tremula, RNA-Seq, QC, Alignment
Alignment
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/RNA-Seq/Nicolas_Delhomme/EMBO-Oct-2014/03_EMBO-October-2014-Alignment.md
https://tess.elixir-europe.org/materials/alignment
Introduction to short-read alignments, including a general overview of existing methods (Burrow-Wheeler-Transform, Maximum Mappable Prefix, _etc._) and some cautionary tales.
Nicolas Delhomme @delhomme
Bastian Schiffthaler @bastian
RNA-Seq
BAM, Populus-tremula, RNA-Seq, QC, Alignment
Alignment of RNA-Seq data
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/RNA-Seq/Bert_Overduin/Introduction-to-RNA-seq-data-analysis-2014/04_Mapping_to_a_reference_genome.md
https://tess.elixir-europe.org/materials/alignment-of-rna-seq-data
Focus on BAM format
Bert Overduin @bert
Alignment
This course builds on the core skills introduced in the Introduction to R, Introduction to Unix and Introduction to SeqMonk courses to provide a more in depth look at the analysis of bisulphite sequencing data. The course is a mix of theoretical lectures and hands on practicals which go through...
Scientific topics: DNA methylation
Analysing bisulfite methylation sequencing data
http://www.bioinformatics.babraham.ac.uk/training.html#bsseq
https://tess.elixir-europe.org/materials/analysing-bisulfite-methylation-sequencing-data
This course builds on the core skills introduced in the Introduction to R, Introduction to Unix and Introduction to SeqMonk courses to provide a more in depth look at the analysis of bisulphite sequencing data. The course is a mix of theoretical lectures and hands on practicals which go through the whole analysis pipeline, starting from raw sequence data and covering QC, visualisation, quantitation and differential methylation analysis.
Felix Krueger
Simon Andrews
DNA methylation
SeqMonk is a program which can analyse large data sets of mapped genomic positions. It is most commonly used to work with data coming from high-throughput sequencing pipelines.
The program allows you to view your reads against an annotated genome and to quantitate and filter your data to let...
Scientific topics: Sequence alignment
Keywords: Babraham Institute
Analysing Mapped Sequence Data with SeqMonk
http://www.bioinformatics.babraham.ac.uk/training.html#seqmonk
https://tess.elixir-europe.org/materials/analysing-mapped-sequence-data-with-seqmonk
SeqMonk is a program which can analyse large data sets of mapped genomic positions. It is most commonly used to work with data coming from high-throughput sequencing pipelines.
The program allows you to view your reads against an annotated genome and to quantitate and filter your data to let you identify regions of interest. It is a friendly way to explore and analysis very large datasets.
This course provides an introduction to the main features of SeqMonk and will run through the anlaysis of a couple of different datasets to show what sort of analysis options it provides.
Simon Andrews
Sequence alignment
Babraham Institute
Learn about and become familiar with phyloseq R package for the analysis of microbial census data
Analysis of community composition data using phyloseq
http://genoweb.toulouse.inra.fr/~formation/15_FROGS/April2016/R_phyloseq/phyloseq_formation_toulouse_201604.pdf
https://tess.elixir-europe.org/materials/analysis-of-community-composition-data-using-phyloseq
Learn about and become familiar with phyloseq R package for the analysis of microbial census data
Formation 16S
R, Microbiomes
This training will give you an overview of what GEO has to offer. Several experiments will be analyzed using simple tools to obtain differential gene lists. An introduction to downstream tools dedicated to functional enrichment will close the session.
Analysis of public microarray data sets
https://www.bits.vib.be/training-list/111-bits/training/previous-trainings/230-analysis-of-public-microarray-data-sets
https://tess.elixir-europe.org/materials/analysis-of-public-microarray-data-sets
This training will give you an overview of what GEO has to offer. Several experiments will be analyzed using simple tools to obtain differential gene lists. An introduction to downstream tools dedicated to functional enrichment will close the session.
Stéphane Plaisance
post-docs
Life Science Researchers
PhD students
2016-04-22
2017-05-25
The morning session will give you an overview of the possibilities of Genevestigator, a search engine of curated and normalized publicly available gene expression data. The interface allows you to visualize spatio-temporal (tissue - developmental stage) and perturbational gene expression...
Scientific topics: Gene expression analysis, Gene expression, Biomarkers
Analysis of public microarray data using Genevestigator
https://www.bits.vib.be/training-list/111-bits/training/previous-trainings/125-genevestigator
https://tess.elixir-europe.org/materials/analysis-of-public-microarray-data-using-genevestigator
The morning session will give you an overview of the possibilities of Genevestigator, a search engine of curated and normalized publicly available gene expression data. The interface allows you to visualize spatio-temporal (tissue - developmental stage) and perturbational gene expression information of many species in a user-friendly graphical way. The afternoon session will focus on the practical applications in a hands-on tutorial on Genevestigator followed by concrete examples of software that can be used to further interpret the results of your Genevestigator searches, like Ingenuity Pathway Analysis and DAVID. Finally, you will be able to work on the questions that you want to answer in your own research under the supervision of the trainer.
Participants are therefore encouraged to submit a description of the objectives of the analysis they want to perform.
Stéphane Plaisance
Gene expression analysis
Gene expression
Biomarkers
PhD students
post-docs
Life Science Researchers
2016-04-22
2017-05-25
This hands-on training provides an introduction to the analysis of qPCR data using Biogazelle's qbase+ software. Although this software allows to do various types of analyses (gene expression, copy number analysis, miRNA profiling), we will focus in the training on gene expression analysis....
Scientific topics: PCR experiment, Gene expression analysis, Gene expression
Keywords: Gene expression data analysis, Gene expression, PCR experiment
Analysis of qPCR data using qbase+
https://www.bits.vib.be/training-list/111-bits/training/previous-trainings/165-qbaseplus-training
https://tess.elixir-europe.org/materials/analysis-of-qpcr-data-using-qbase
This hands-on training provides an introduction to the analysis of qPCR data using Biogazelle's qbase+ software. Although this software allows to do various types of analyses (gene expression, copy number analysis, miRNA profiling), we will focus in the training on gene expression analysis. qbase+ software is freely distributed by BITS to VIB scientists. Therefore the training will be limited to VIB scientists.
Janick Mathys
PCR experiment
Gene expression analysis
Gene expression
Gene expression data analysis, Gene expression, PCR experiment
post-docs
PhD students
Life Science Researchers
2016-04-22
2017-05-25
You already know a good bit about hypothesis testing with one or two samples. Now we take things further by making inferences based on three or more samples. We'll use the very special F-distribution to do it (F stands for "fabulous").
Keywords: Inferential statistics
Analysis of variance
https://www.khanacademy.org/math/probability/statistics-inferential/anova
https://tess.elixir-europe.org/materials/analysis-of-variance
You already know a good bit about hypothesis testing with one or two samples. Now we take things further by making inferences based on three or more samples. We'll use the very special F-distribution to do it (F stands for "fabulous").
Inferential statistics
2016-08-14
IPA is software that allows researchers to analyze, integrate and understand data derived from experiments that generate a list of relevant genes, proteins or chemicals. The software relies on the Ingenuity Knowledge Base, a thoroughly curated database of high quality information on biological...
Analyzing biological networks with Ingenuity Pathway Analysis
https://www.bits.vib.be/training-overview/analyzing-biological-networks
https://tess.elixir-europe.org/materials/analyzing-biological-networks-with-ingenuity-pathway-analysis
IPA is software that allows researchers to analyze, integrate and understand data derived from experiments that generate a list of relevant genes, proteins or chemicals. The software relies on the Ingenuity Knowledge Base, a thoroughly curated database of high quality information on biological interactions and functional annotation. The database is limited to information on human, mouse and rat.
Stéphane Plaisance
Life Science Researchers
PhD students
post-docs
2016-04-22
2016-06-15
Flowjo version10 is a newly designed version of the famous Flowjo software. In contrast with previous versions (iOS only), version 10 is now a multi-platform software tool (Windows, iOS, Linux). It now has a very intuitive user interface designed to analyze your data in a very practical and fast...
Analyzing flow cytometry data using FlowJo
https://www.bits.vib.be/training-list/112-bits/training/upcoming-trainings/242-analyzing-flow-cytometry-data-using-flowjo
https://tess.elixir-europe.org/materials/analyzing-flow-cytometry-data-using-flowjo
Flowjo version10 is a newly designed version of the famous Flowjo software. In contrast with previous versions (iOS only), version 10 is now a multi-platform software tool (Windows, iOS, Linux). It now has a very intuitive user interface designed to analyze your data in a very practical and fast way.
The training will be focused on getting familiar with all the tools available within the software.
Gert Van Isterdael
PhD students
post-docs
Life Science Researchers
2016-04-22
2017-05-25
Analyzing Patient Data from https://github.com/swcarpentry/bc/tree/gh-pages/novice/matlab/01-intro.md.
Analyzing Patient Data
https://github.com/swcarpentry/bc/tree/gh-pages/novice/matlab/01-intro.md
https://tess.elixir-europe.org/materials/analyzing-patient-data
Analyzing Patient Data from https://github.com/swcarpentry/bc/tree/gh-pages/novice/matlab/01-intro.md.
Matlab
Novice
This introduces to the different sources of genomic and genic annotation and to their most commonly used format. It also introduces how to ensure that the used annotation are not a source of bias in downstream analyses.
Scientific topics: RNA-Seq
Keywords: GFF3, Populus-tremula, RNA-Seq, Annotation
Annotation
https://microasp.upsc.se/ngs_trainers/Materials/tree/master/Content/RNA-Seq/Nicolas_Delhomme/EMBO-Oct-2014/04_EMBO-October-2014-Annotation.md
https://tess.elixir-europe.org/materials/annotation
This introduces to the different sources of genomic and genic annotation and to their most commonly used format. It also introduces how to ensure that the used annotation are not a source of bias in downstream analyses.
Nicolas Delhomme @delhomme
Bastian Schiffthaler @bastian
RNA-Seq
GFF3, Populus-tremula, RNA-Seq, Annotation
The aim of this course is to introduce you to data modelling using R.
We focus on linear regression and ANOVA in order to improve your generic statistics knowledge.
Please note that we cannot go into the specific data analysis problems of your particular project.
ANOVA and linear regression with R
http://biocomp.vbcf.ac.at/training/biostat/rlinmod.html
https://tess.elixir-europe.org/materials/linear-models-with-r
The aim of this course is to introduce you to data modelling using R.
We focus on linear regression and ANOVA in order to improve your generic statistics knowledge.
Please note that we cannot go into the specific data analysis problems of your particular project.
András Aszódi
2017-05-25
ArrayExpress: Discover functional genomics data quickly and easily from http://www.ebi.ac.uk/training/online/course/arrayexpress-discover-functional-genomics-data-qui.
Keywords: Gene Expression
ArrayExpress: Discover functional genomics data quickly and easily
http://www.ebi.ac.uk/training/online/course/arrayexpress-discover-functional-genomics-data-qui
https://tess.elixir-europe.org/materials/arrayexpress-discover-functional-genomics-data-quickly-and-easily
ArrayExpress: Discover functional genomics data quickly and easily from http://www.ebi.ac.uk/training/online/course/arrayexpress-discover-functional-genomics-data-qui.
Gene Expression
2016-06-14
This quick tour provides an overview of EMBL-EBI’s functional genomics database ArrayExpress.
This course was updated in December 2015.
An undergraduate-level understanding of biology is an advantage. You may wish to have a look at our Functional genomics: An introduction to EMBL-EBI...
Scientific topics: Gene expression, Gene expression and microarray, Functional genomics
Keywords: Gene Expression
ArrayExpress: Quick tour
http://www.ebi.ac.uk/training/online/course/arrayexpress-quick-tour-1
https://tess.elixir-europe.org/materials/arrayexpress-quick-tour
This quick tour provides an overview of EMBL-EBI’s functional genomics database ArrayExpress.
This course was updated in December 2015.
An undergraduate-level understanding of biology is an advantage. You may wish to have a look at our Functional genomics: An introduction to EMBL-EBI resources before taking this course.
Melissa Burke
Gene expression
Gene expression and microarray
Functional genomics
Gene Expression
Beginners
2016-06-14
DNA sequence data has become an indispensable tool for Molecular Biology & Evolutionary Biology. Study in these fields now require a genome sequence to work from. We call this a 'Reference Sequence.' We need to build a reference for each species. We do this by Genome Assembly. De novo Genome...
Assembly - De Bruijn Graph Assembly
http://galaxyproject.github.io/training-material/Assembly/slides/#1
https://tess.elixir-europe.org/materials/assembly-introduction-to-genome-assembly
DNA sequence data has become an indispensable tool for Molecular Biology & Evolutionary Biology. Study in these fields now require a genome sequence to work from. We call this a 'Reference Sequence.' We need to build a reference for each species. We do this by Genome Assembly. De novo Genome Assembly is the process of reconstructing the original DNA sequence from the fragment reads alone.
Simon Gladman
Soils are highly complex ecosystems and are considered as one of the Earth’s main reservoirs of biological diversity. Bacteria account for a major part of this biodiversity, and it is now clear that such microorganisms have a key role in soil functioning processes. However, environmental factors...
Assessing microbial biogeography by using a metagenomic approach
http://www.france-bioinformatique.fr/sites/default/files/videos/scorms/metagenomics16/session_4/Assessing_microbial_biogeography_by_using_a_metagenomic_approach/scormcontent/index.html
https://tess.elixir-europe.org/materials/assessing-microbial-biogeography-by-using-a-metagenomic-approach-2010019e-528d-4947-9056-e67e089ad240
Soils are highly complex ecosystems and are considered as one of the Earth’s main reservoirs of biological diversity. Bacteria account for a major part of this biodiversity, and it is now clear that such microorganisms have a key role in soil functioning processes. However, environmental factors regulating the diversity of below-ground bacteria still need to be investigated, which limits our understanding of the distribution of such bacteria at various spatial scales. The overall objectives of this study were: (i) to determine the spatial patterning of bacterial community diversity in soils at a broad scale, and (ii) to rank the environmental filters most influencing this distribution.
This study was performed at the scale of the France by using the French Soil Quality Monitoring Network. This network includes more than 2,200 soil samples along a systematic grid sampling. For each soil, bacterial diversity was characterized using a pyrosequencing approach targeting the 16S rRNA genes directly amplified from soil DNA, obtaining more than 18 million of high-quality sequences.
This study provides the first estimates of microbial diversity at the scale of France, with for example, bacterial richness ranging from 555 to 2,007 OTUs (on average: 1,289 OTUs). It also provides the first extensive map of bacterial diversity, as well as of major bacterial taxa, revealing a bacterial heterogeneous and spatially structured distribution at the scale of France. The main factors driving bacterial community distribution are the soil physico-chemical properties (pH, texture...) and land use (forest, grassland, crop system...), evidencing that bacterial spatial distribution at a broad scale depends on local filters such as soil characteristics and land use when regarding the community (quality, composition) as a whole. Moreover, this study also offers a better evaluation of the impact of land uses on soil microbial diversity and taxa, with consequences in terms of sustainability for agricultural systems.
Sébastien Terrat
metagenomics
2016-12-16
2017-01-11
Automatic variables and wildcards from https://github.com/swcarpentry/bc/tree/gh-pages/intermediate/make/02-automatic-variables.md.
Automatic variables and wildcards
https://github.com/swcarpentry/bc/tree/gh-pages/intermediate/make/02-automatic-variables.md
https://tess.elixir-europe.org/materials/automatic-variables-and-wildcards
Automatic variables and wildcards from https://github.com/swcarpentry/bc/tree/gh-pages/intermediate/make/02-automatic-variables.md.
Make
Intermediate
Many bioinformatics tools have been developed over the last decennium, most of which were meant to be used in the lab of the life scientist. Unfortunately, only a few made it, because the tools are often too non-intuitive and too much a black box to the life scientist. Therefore Hanka Venselaar...
Keywords: http://www.mygoblet.org/topic-tags/disease-causing-mutation, http://www.mygoblet.org/topic-tags/predicting-effect-mutation-structure, http://www.mygoblet.org/topic-tags/predicting-effect-mutation-protein-function
Basic bioinformatics and HOPE
http://www.mygoblet.org/training-portal/materials/basic-bioinformatics-and-hope-0
https://tess.elixir-europe.org/materials/basic-bioinformatics-and-hope
Many bioinformatics tools have been developed over the last decennium, most of which were meant to be used in the lab of the life scientist. Unfortunately, only a few made it, because the tools are often too non-intuitive and too much a black box to the life scientist. Therefore Hanka Venselaar developed HOPE to at least make the explanation of the phenotypic effect of mutations in (human) proteins intuitive for the non-bioinformatics expert. We developed this course to explain the basics of this program, and the underlying theory.
Gert Vriend
http://www.mygoblet.org/topic-tags/disease-causing-mutation, http://www.mygoblet.org/topic-tags/predicting-effect-mutation-structure, http://www.mygoblet.org/topic-tags/predicting-effect-mutation-protein-function
predicting effect of mutation on protein function
Disease causing mutation
Predicting effect of mutation on structure
2014-07-23
2017-05-25
