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aalba-tree

actions

GitHub Actions for the R community

atac

nextflow ATACseq pipeline for GG02

atacseq

ATAC-seq peak-calling, QC and differential analysis pipeline.

awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

b_samples

MECFS B samples merged (Final October)

barber-jekyll

baseqdrops

A versatile and lightning fast package for processing 10X, inDrop and Drop-seq data.

betabox

DEMUX, ALIGN, DESEQ2 DGE CALLS

bio-playground

miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.

bioinformatics

:microscope: Path to a free self-taught education in Bioinformatics!

bixbeta

bixbeta.github.io

blotter

bedford lab research

book

books

Collection of Programming, Databases, Linux & Tools Books

build-your-own-x

🤓 Build your own (insert technology here)

cfg

RNA-seq workflow for UALBANY CFG - Demux, QC, Vis, Align, preProcess, DGE Calls

cgat

CGAT - Computational Genomics Analysis Tools

checkmyindex

Search for a set of compatible indexes for your sequencing experiment

chip-seq

chip-seq_preprocess

A preprocessing pipeline for ChIP-seq, including alignment, quality control, and visualization.

citeseq-a

C4693 C7338 C8651rpt C9020

clusterprofshinyora

A web-based application to perform Over-Representation Analysis (ORA) using clusterProfiler and shiny R libraries

ctk

CLIP Tool Kit (CTK)

deseq2-shiny

A shiny application to perform differential gene expression analysis of count data using DESeq2. The app also allows unsupervised exploration of data using PCA and hierarchical clustering.

deseq2shiny

R packge for deseq2shiny app

deseq2shiny2

DESeq2Shiny2 is an R shiny application to handle NGS count data and perform unsupervised clustering and Differential Gene Expression Analysis using DESeq2.

dey-3003

dge_workshop_salmon