ben-laufer / CpG_MeLinks
A whole genome bisulfite sequencing (WGBS) pipeline for the alignment and QC of DNA methylation that goes from from raw reads (FastQ) to a CpG count matrix (Bismark cytosine reports)
☆23Updated 3 years ago
Alternatives and similar repositories for CpG_Me
Users that are interested in CpG_Me are comparing it to the libraries listed below
Sorting:
- A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.☆35Updated 4 years ago
- A R package and executable for the preprocessing, statistical analysis, and downstream testing and visualization of differentially methyl…☆46Updated 2 years ago
- A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…☆32Updated 3 years ago
- Genomic Association Tester☆32Updated 2 years ago
- CLIP-seq Analysis of Multi-mapped reads☆31Updated 4 years ago
- ☆38Updated 4 years ago
- Long read to rMATS☆32Updated 2 years ago
- Comprehensive analysis of small RNA sequencing data☆33Updated 4 months ago
- RNA editing quantification in deep transcriptome data☆15Updated 2 months ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆40Updated 3 years ago
- EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.☆62Updated 9 months ago
- Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data☆28Updated 2 years ago
- ☆72Updated 2 years ago
- Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…☆27Updated 3 months ago
- Main repository for Drews et al. (Nature, 2022)☆42Updated 2 years ago
- ☆23Updated 4 years ago
- SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …☆50Updated 3 weeks ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆31Updated 2 years ago
- Full-length transcriptome splicing and mutation analysis☆84Updated last year
- Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools☆80Updated 4 years ago
- Enhanced version of the FastQTL QTL mapper☆68Updated 2 years ago
- RNA editing tests☆17Updated 5 years ago
- A tool for the calculation of RNA-editing index for RNA seq data☆45Updated last year
- gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (…☆33Updated 3 years ago
- ☆31Updated last year
- ☆21Updated 3 weeks ago
- Software to compute reproducibility and quality scores for Hi-C data☆50Updated 6 years ago
- Demultiplexes a fastq.☆47Updated 4 years ago
- Define regions in the genome☆33Updated 3 years ago
- HiC for copy Number variation and Translocation detection☆39Updated 4 years ago