jlab-code / MethylStarLinks
A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.
☆36Updated 4 years ago
Alternatives and similar repositories for MethylStar
Users that are interested in MethylStar are comparing it to the libraries listed below
Sorting:
- Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data☆28Updated 2 years ago
- ☆21Updated 3 weeks ago
- ☆38Updated 4 years ago
- Tools for analyzing DNA methylation data☆44Updated last week
- A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…☆32Updated 3 years ago
- BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.☆27Updated 6 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆41Updated 3 years ago
- Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics☆50Updated 2 weeks ago
- Define regions in the genome☆33Updated 3 years ago
- A tool for the calculation of RNA-editing index for RNA seq data☆45Updated last week
- SingleCell Nanopore sequencing data analysis☆61Updated 5 months ago
- ☆72Updated 2 years ago
- Main repository for Drews et al. (Nature, 2022)☆42Updated 2 years ago
- Tumor Mutational Burden☆62Updated 3 months ago
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆36Updated 2 years ago
- gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (…☆33Updated 3 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 7 years ago
- Enhanced version of the FastQTL QTL mapper☆70Updated 2 years ago
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆52Updated 3 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…☆60Updated 5 years ago
- tools to find circRNAs in RNA-seq data☆44Updated 7 years ago
- This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …☆34Updated last month
- 4C-seq processing pipeline☆26Updated 7 months ago
- Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools☆80Updated 4 years ago
- QDNAseq package for Bioconductor☆52Updated last year
- Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue☆56Updated last month
- A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot☆74Updated last week
- 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…☆45Updated 3 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆31Updated 2 years ago
- Genomic Identification of Significant Targets in Cancer (GISTIC), version 2☆52Updated 3 years ago