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UNDER CONSTRUCTION: A pipeline for Genome Wide Association Studies
Bioinformatics pipeline that makes use of expression and open chromatin data to identify differentially active transcription factors across conditions.
ChIP-seq peak-calling, QC and differential analysis pipeline.
ATAC-seq peak-calling and QC analysis pipeline
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection
rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis
A curated list of resources for learning bioinformatics.
📚 Freely available programming books