CGATOxford / cgat
Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-apps
☆124Updated 6 years ago
Alternatives and similar repositories for cgat:
Users that are interested in cgat are comparing it to the libraries listed below
- Quality of RNA-Seq Toolset☆52Updated 5 years ago
- ☆78Updated 11 years ago
- Basic operations on the space of numerical functions defined on the genome using lazy evaluators for flexibility and efficiency☆147Updated 4 months ago
- Collection of CGAT NGS Pipelines☆43Updated 6 years ago
- Snakefiles for common RNA-seq data analysis workflows (STAR and Kallisto).☆92Updated 7 years ago
- An R package for inferring the subclonal architecture of tumors☆117Updated last year
- HMMRATAC peak caller for ATAC-seq data☆100Updated 4 months ago
- Battenberg algorithm and associated implementation script☆52Updated 4 years ago
- A tool for bigWig files.☆119Updated 6 years ago
- nucleosome calling using ATAC-seq☆106Updated 4 years ago
- Transcript quantification import for modular pipelines☆137Updated 11 months ago
- integrated RNA-seq Analysis Pipeline☆85Updated 6 years ago
- Microassembly based somatic variant caller for NGS data☆154Updated 2 years ago
- R package for bcbio RNA-seq analysis.☆62Updated 6 months ago
- phasing and Allele Specific Expression from RNA-seq☆112Updated 8 months ago
- Very simple, pure python, BAM file reader☆79Updated 6 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆70Updated 4 years ago
- Genomic Interactive Visualization Engine☆145Updated 2 years ago
- Relevant papers for CNV and SV approaches☆94Updated 4 months ago
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…☆77Updated 5 years ago
- NGS-pipe: next-generation sequencing pipelines for precision oncology☆109Updated 6 years ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆48Updated 5 years ago
- ☆82Updated 3 years ago
- A toolset for profiling alternative splicing events in RNA-Seq data.☆80Updated last month
- identifying mutational significance in cancer genomes☆61Updated 2 years ago
- RNA-Sequencing data differential expression analysis pipeline. Performs: genome coverage (via bedtools and HTSeq), generates Circos code …☆55Updated 12 years ago
- Automatically exported from code.google.com/p/ea-utils☆96Updated last year
- BISulfite-seq CUI Toolkit☆65Updated 2 months ago
- Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.☆51Updated 6 years ago
- fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome☆147Updated 7 months ago