genome/bfx-workshop

A course on genomics and bioinformatics from WU

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cparsania/parcutils

An R package containing bioinformatics utility functions. Mostly related to RNAseq data analysis

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lakhanp1/omics_utils

util scripts for various omics data analysis

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l0andr/chipover

A command-line toolkit for summarizing, analyzing, and interpreting ChIP-Seq and RNA-Seq experiments, designed for enhancer and super-enhancer region analysis in tumor-normal pairs, with applications in differential enrichment and multi-sample domain analysis.

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FrietzeLabUVM/TAP

Pipeline to process RNAseq and ChIPseq data. Outputs include gene counts, transcripts per million, alternate splicing events, SNP calls, and bigwigs. Supports both Docker and Singularity for all dependencies.

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Muedi/qcGenes_manuscript

Workflows for correlation of Expression and peaks with file quality, related to our paper "Overlooked poor-quality patient samples in sequencing data impair reproducibility of published clinically relevant datasets"

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psaisan/PEAKDIFF

Differential peak analysis, genomic sequences associated with distinct experimental conditions

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TheFraserLab/cisVar Fork of tehranchi/cisVar

cisVar scripts.

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BIMSBbioinfo/pigx_chipseq

Pipeline for Analysis of ChIP-Seq data

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pipaber/Multi-omics

This is a repository to show my experience analyzing different kinds of Omics data.

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sebastian-gregoricchio/SPACCa

Snakemake Pipeline for the Analyses of ChIP-seq data in Cancer samples

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lakhanp1/markPeaks

Genomic regions (e.g ChIPseq peaks) annotation with TxDB object

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lakhanp1/chipmine

R package for exploratory analysis of ChIPseq data

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ncbi/pm4ngs

Project Manager for NGS data analysis

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pd321/chipseq

A snakemake based workflow for ChIPSeq data analysis

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BIMSBbioinfo/pigx

Pipelines in genomics

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LieberInstitute/dbFinder

dbFinder code

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boulderrinnlab/CLASS_2020

A pre-cooked version of our course

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mireia-bioinfo/workshop_bioinfo_ChIPseq

🖥️🧬 Materials for a Bioinformatics Workshop on ChIP-seq analysis, introduction to R and GenomicRanges.

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MahShaaban/targetFlow

target: An R Package to Predict Combined Function of Transcription Factors (workflow article)

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GeT-TRiX/MA_Trix_App

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MahShaaban/chromatin_segmentation_r

Package demo slides, "Chromatin Segmentation Analysis in R"

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MahShaaban/segmenterNote

A technical note to describe the segmenter package

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dogmaticcentral/progesterone

Which ESR1 and PGR binding sites are functional?

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sethiyap/ChIPSeq

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