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

CLIP sequencing analysis pipeline for QC, pre-mapping, genome mapping, UMI deduplication, and multiple peak-calling options.

The ChIP-Seq peak calling algorithm using convolution neural networks

Multiple-replica multiple-condition Macs2 ChIPSeq wrapper

🥇 Maximum homogeneity clustering for one-dimensional data

Benchmarking ChIP-seq peak callers

An awesome set of epigenetic pipelines for bulk cfChip-seq, ChIP-seq, and ATAC-seq

CUT&RUN-Flow, A Nextflow pipeline for QC, tag trimming, normalization, and peak calling for data from CUT&RUN experiments.

ChIP-Seq processing pipeline on snakemake

cell-free ChIP-seq pipeline

Comprehensive analysis pipeline for ATAC-seq data including QC, alignment, peak calling, annotation, motif analysis, and gene enrichment. Delivers key insights and reproducible results for chromatin accessibility studies.

Peak classification with Deep Learning

SPP - R package for analysis of ChIP-seq and other functional sequencing data

Peak Calling algorithm for Chromatin-immunoprecipitation sequencing (ChIP-seq) data

Repozitorijoje saugomi failai, implementuojantys R Shiny aplikaciją ir leidžiantys vertinti įkeltų genominių duomenų kokybę bei vykdyti biologines analizes.

R package for mining, calling, and importing epigenomic peaks.

Peak calling optimization via real time results assessment and interactive parameter adjustment.

Reproducible and scalable technical pipelines for ChIP-Seq and RNA-Seq processing

A small script to find peaks from the .bigWig file and output them in a .bed file.