CGATOxford / cgatLinks
Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-apps
☆124Updated 7 years ago
Alternatives and similar repositories for cgat
Users that are interested in cgat are comparing it to the libraries listed below
Sorting:
- Quality of RNA-Seq Toolset☆53Updated 6 years ago
- Snakefiles for common RNA-seq data analysis workflows (STAR and Kallisto).☆94Updated 8 years ago
- How to use CENTIPEDE to determine if a transcription factor is bound.☆26Updated 7 years ago
- Battenberg algorithm and associated implementation script☆53Updated 5 years ago
- A Nextflow-based pipeline for comprehensive analyses of long non-coding RNAs from RNA-seq datasets☆84Updated 3 years ago
- integrated RNA-seq Analysis Pipeline☆84Updated 6 years ago
- Run Picard on BAM files and collate 90 metrics into one file.☆40Updated 8 years ago
- ☆78Updated 11 years ago
- nucleosome calling using ATAC-seq☆109Updated 5 years ago
- Basic operations on the space of numerical functions defined on the genome using lazy evaluators for flexibility and efficiency☆152Updated last year
- Genomic Interactive Visualization Engine☆146Updated 3 years ago
- Documenting usage and experience with bioinformatic tools☆40Updated 10 years ago
- Collection of CGAT NGS Pipelines☆43Updated 7 years ago
- Tumor Heterogeneity Analysis (THetA) and THetA2 are algorithms that estimate the tumor purity and clonal/subclonal copy number aberration…☆75Updated 4 years ago
- A tool for bigWig files.☆118Updated 7 years ago
- List of tools and resources related to the 10x Genomics GEMCode/Chromium system☆86Updated 6 years ago
- NGS-pipe: next-generation sequencing pipelines for precision oncology☆114Updated 6 years ago
- Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.☆51Updated 7 years ago
- ☆69Updated 3 years ago
- identifying mutational significance in cancer genomes☆62Updated 3 years ago
- RNA-Sequencing data differential expression analysis pipeline. Performs: genome coverage (via bedtools and HTSeq), generates Circos code …☆56Updated 13 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆72Updated 5 years ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆49Updated 6 years ago
- Framework for integrated analysis and plotting of ChIP/RIP/RNA/*-seq data☆87Updated 5 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆43Updated 4 years ago
- piRNA pipeline collection developed in the Zamore Lab and ZLab in UMass Med School☆61Updated 6 months ago
- (DEPRECATED) epic: diffuse domain ChIP-Seq caller based on SICER☆31Updated 7 years ago
- R package for bcbio RNA-seq analysis.☆63Updated last year
- Tool for the detection and quantification of alternative splicing events from RNA-Seq data.☆111Updated 5 months ago
- Relevant papers for CNV and SV approaches☆94Updated last year