CGATOxford / CGATPipelines
Collection of CGAT NGS Pipelines
☆43Updated 6 years ago
Alternatives and similar repositories for CGATPipelines:
Users that are interested in CGATPipelines are comparing it to the libraries listed below
- R package for bcbio RNA-seq analysis.☆59Updated 5 months ago
- Quality of RNA-Seq Toolset☆52Updated 5 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆70Updated 4 years ago
- Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data☆65Updated 4 years ago
- Opossum is a tool to pre-process RNA-seq reads prior to variant calling.☆28Updated 6 years ago
- Battenberg algorithm and associated implementation script☆52Updated 4 years ago
- ☆30Updated 6 years ago
- Run Picard on BAM files and collate 90 metrics into one file.☆39Updated 7 years ago
- HMMRATAC peak caller for ATAC-seq data☆100Updated 3 months ago
- A preprocessing and QC pipeline for HiChIP data☆35Updated 2 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- Battenberg R package for subclonal copynumber estimation☆84Updated last week
- Genomic Association Tester☆30Updated last year
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆43Updated 2 years ago
- DCC uses output from the STAR read mapper to systematically detect back-splice junctions in next-generation sequencing data. DCC applies …☆36Updated 2 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆38Updated 3 years ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- Documenting usage and experience with bioinformatic tools☆41Updated 9 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆96Updated 3 years ago
- Gossamer bioinformatics suite☆20Updated 2 months ago
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆49Updated 2 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆40Updated 3 years ago
- A pipeline for analyzing DNA methylation data from bisulfite sequencing.☆70Updated 2 years ago
- Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19☆74Updated 7 months ago
- A toolkit for QC and visualization of ATAC-seq results.☆67Updated last month
- Fast fusion detection using kallisto☆80Updated 3 months ago
- ☆78Updated 10 years ago
- Snakemake-based workflow for detecting structural variants in genomic data☆80Updated this week
- ☆18Updated 2 years ago
- ☆116Updated last year