shenlab-sinai / chip-seq_preprocessLinks
A preprocessing pipeline for ChIP-seq, including alignment, quality control, and visualization.
☆27Updated 8 years ago
Alternatives and similar repositories for chip-seq_preprocess
Users that are interested in chip-seq_preprocess are comparing it to the libraries listed below
Sorting:
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆43Updated 4 years ago
- ☆18Updated 7 years ago
- ☆39Updated 4 years ago
- DCC uses output from the STAR read mapper to systematically detect back-splice junctions in next-generation sequencing data. DCC applies …☆38Updated 3 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…☆32Updated 4 years ago
- Collection of CGAT NGS Pipelines☆43Updated 7 years ago
- A pipeline for analyzing DNA methylation data from bisulfite sequencing.☆71Updated 3 years ago
- Scripts involved in our workflow for detecting CNVs from WGS data using read depth-based methods☆46Updated 3 years ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 3 years ago
- Junction Based Analysis of Splicing Events for RNA-Seq☆34Updated 4 months ago
- Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data☆67Updated 5 years ago
- tools to find circRNAs in RNA-seq data☆45Updated 8 years ago
- ☆75Updated 2 years ago
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆32Updated 9 years ago
- identifying mutational significance in cancer genomes☆62Updated 3 years ago
- GTEx analysis scripts☆20Updated 8 years ago
- Tools for extracting read counts and gc and mappability statistics in preparation for running HMMCopy.☆44Updated 4 years ago
- Exome/Capture/RNASeq Pipeline Implementation using snakemake☆47Updated 7 years ago
- Filters for false-positive mutation calls in NGS☆34Updated 6 years ago
- Snakemake based pipeline for RNA-Seq analysis☆31Updated 6 years ago
- gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (…☆32Updated 4 years ago
- GIREMI is a method that can identify RNA editing sites using one RNA-seq data set without requiring genome sequence data.☆44Updated 8 years ago
- Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…☆27Updated 3 months ago
- code associated with crane-nature-2015, 10.1038/nature14450☆36Updated 10 years ago
- Multi-sample somatic variant caller☆52Updated 4 years ago
- This package computes informative enrichment and quality measures for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data. It can also be used to…☆62Updated 5 years ago
- BISulfite-seq CUI Toolkit☆26Updated last week
- RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.☆28Updated 3 years ago
- Arabidopsis RNA_-seq downstream analysis shiny app☆30Updated 6 years ago