Training materials
Contributors: Daniel Blankenberg or Dr. Paul Shaw or Dr. Roland Schwarz or Emily Angiolini or Erwan Corre or Gautam Vallabha or Prof. Tom Freeman or Ray Sajulga
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hands-on tutorial
Genome Assembly Quality Control
•• intermediateSequence assembly Assembly assembly quality control -
slides
Genome assembly quality control.
• beginnerSequence assembly Assembly -
hands-on tutorial
Masking repeats with RepeatMasker
• beginnerGenome Annotation eukaryote -
hands-on tutorial
Genome annotation with Funannotate
•• intermediateGenome Annotation eukaryote gmod jbrowse1 -
hands-on tutorial
Genome assembly using PacBio data
•• intermediateSequence assembly Assembly assembly pacbio -
hands-on tutorial
De novo transcriptome assembly, annotation, and differential expression analysis
• beginnerTranscriptomics -
hands-on tutorial
Pre-processing of 10X Single-Cell RNA Datasets
• beginnerTranscriptomics 10x Single Cell -
hands-on tutorial
PAPAA PI3K_OG: PanCancer Aberrant Pathway Activity Analysis
• beginnerStatistics and probability Machine learning Pan-cancer Statistics and machine learning cancer biomarkers oncogenes and tumor suppressor genes -
hands-on tutorial
Text-mining with the SimText toolset
• beginnerStatistics and probability Statistics and machine learning interactive-tools -
hands-on tutorial
Proteogenomics 1: Database Creation
•• intermediateProteomics proteogenomics