A tool to map bisulfite converted sequence reads and determine cytosine methylation states
☆446Aug 8, 2025Updated 8 months ago
Alternatives and similar repositories for Bismark
Users that are interested in Bismark are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- R package for DNA methylation analysis☆251Jan 18, 2026Updated 2 months ago
- A (mostly) universal methylation extractor for BS-seq experiments.☆178Jun 21, 2024Updated last year
- A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…☆545Feb 24, 2026Updated last month
- ViewBS - a powerful toolkit for visualization of high-throughput bisulfite sequencing data☆87Sep 24, 2024Updated last year
- fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome☆159Aug 8, 2025Updated 8 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- WGBS/NOMe-seq Data Processing & Differential Methylation Analysis☆148May 20, 2023Updated 2 years ago
- Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark/bwa-meth + MethylDackel or bwa-mem + rastair☆189Updated this week
- BISulfite-seq CUI Toolkit☆70Oct 9, 2025Updated 6 months ago
- Devel repository for bsseq☆39Feb 6, 2026Updated 2 months ago
- ☆16Apr 9, 2026Updated last week
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆511Feb 26, 2026Updated last month
- tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies☆187Mar 25, 2026Updated 3 weeks ago
- Tools for working with SAM/BAM data☆609Dec 22, 2024Updated last year
- BS-seq analysis pipeline☆46Mar 28, 2023Updated 3 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.☆29Jul 5, 2019Updated 6 years ago
- Tools to process and analyze deep sequencing data.☆754Jul 23, 2025Updated 8 months ago
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,324Apr 8, 2026Updated last week
- toolbox for analysing BS-seq data, advance features in SNV, ASM and DMR☆67Dec 22, 2023Updated 2 years ago
- MACS -- Model-based Analysis of ChIP-Seq☆772Apr 8, 2026Updated last week
- Allele-specific alignment sorting☆61Jan 7, 2023Updated 3 years ago
- Tools for analyzing DNA methylation data☆44Feb 15, 2026Updated 2 months ago
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,439Apr 9, 2026Updated last week
- A fast and sensitive gapped read aligner☆785Mar 7, 2026Updated last month
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- MONOD2 is a toolkit for methylation haplotype analysis of bisulfite sequencing data☆40Feb 20, 2019Updated 7 years ago
- DCC/DAC methylation pipeline source☆56Jul 29, 2020Updated 5 years ago
- A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.☆1,062Mar 24, 2026Updated 3 weeks ago
- SeqMonk NGS visualisation and analysis tool☆51Mar 31, 2026Updated 2 weeks ago
- Graph-based alignment (Hierarchical Graph FM index)☆532Jan 27, 2026Updated 2 months ago
- A versatile aligning pipeline for bisulfite sequencing data☆68Oct 30, 2018Updated 7 years ago
- BEDOPS: high-performance genomic feature operations☆365Apr 29, 2025Updated 11 months ago
- Tools for extracting read counts and gc and mappability statistics in preparation for running HMMCopy.☆44Jul 28, 2021Updated 4 years ago
- RSEM: accurate quantification of gene and isoform expression from RNA-Seq data☆470Apr 7, 2026Updated last week
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Cluster-based analysis of CpG methylation☆13Jan 11, 2024Updated 2 years ago
- Single-cell Bisulfite Sequencing Data Mapping☆12May 19, 2021Updated 4 years ago
- bedtools - the swiss army knife for genome arithmetic☆1,027Mar 11, 2025Updated last year
- R package for Inference of differentially methylated regions (DMRs) from bisulfite sequencing☆63May 9, 2025Updated 11 months ago
- a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads☆234Feb 17, 2022Updated 4 years ago
- A R package and executable for the preprocessing, statistical analysis, and downstream testing and visualization of differentially methyl…☆49Oct 10, 2023Updated 2 years ago
- RNA-seq aligner☆2,178Mar 18, 2025Updated last year