TheJacksonLaboratory / cs-nf-pipelines
The Jackson Laboratory Computational Sciences Nextflow based analysis pipelines
☆20Updated last month
Related projects ⓘ
Alternatives and complementary repositories for cs-nf-pipelines
- Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…☆26Updated 3 months ago
- A toolkit for working with ATAC-seq data.☆24Updated 5 months ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆41Updated 2 years ago
- Disambiguation algorithm for reads aligned to human and mouse genomes using Tophat or BWA mem☆29Updated 6 years ago
- RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.☆26Updated 2 years ago
- An R package for predicting HR deficiency from mutation contexts☆27Updated last year
- Tutorials covering various topics in genomic data analysis.☆16Updated 5 years ago
- Genomic Association Tester☆29Updated last year
- a set of NGS pipelines☆24Updated 2 weeks ago
- Interactive R package to quantify, analyse and visualise alternative splicing☆36Updated this week
- TIMEOR: Trajectory Inference and Mechanism Exploration with Omics Data in R☆17Updated 2 years ago
- ☆13Updated 7 years ago
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆28Updated 5 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆39Updated 3 years ago
- ☆17Updated 5 years ago
- MAnorm2 for Normalizing and Comparing ChIP-seq Samples☆32Updated 2 years ago
- snakemake workflow for post-processing scATACseq data☆19Updated 4 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆29Updated last month
- Junction Based Analysis of Splicing Events for RNA-Seq☆30Updated 6 years ago
- Flexible Bayesian inference of mutational signatures☆33Updated last year
- R package for reading in & working with NucleoATAC outputs☆26Updated 6 years ago
- Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers☆15Updated 6 years ago
- software for analysis of chromatin feature occupancy profiles from high-throughput sequencing data☆16Updated 4 years ago
- RNA-seq workflow: differential transcript usage☆20Updated last year
- Robust Allele Specific Quantification and quality controL☆37Updated 2 years ago
- Isoform co-usage networks from single-cell RNA-seq data☆15Updated 9 months ago
- Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.☆34Updated 4 months ago
- A bioinformatics pipeline for viral transcriptome detection and quantification considering splicing.☆34Updated 2 years ago
- CNV analysis workflow code for the manuscript☆13Updated 4 years ago