Tools for analyzing 10X Genomics data
☆42Feb 6, 2019Updated 7 years ago
Alternatives and similar repositories for bxtools
Users that are interested in bxtools are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Genome-wide reconstruction of complex structural variants☆39Jun 21, 2022Updated 3 years ago
- 10x Genomics Reads Simulator☆46Dec 26, 2023Updated 2 years ago
- Linked-Read Alignment Tool☆26May 16, 2019Updated 6 years ago
- Utility functions to extend and optimize GenomicRanges functionality.☆10Mar 6, 2025Updated last year
- Toolkit for extracting SVs from long sequences and benchmarking variant callers☆13Jan 10, 2017Updated 9 years ago
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- R package for visualizing complex and multi-track 1D and 2D genomic data in GenomicRanges framework☆17Jan 7, 2025Updated last year
- Filtering and profiling of next-generational sequencing data using region-specific rules☆79Oct 30, 2023Updated 2 years ago
- List of tools and resources related to the 10x Genomics GEMCode/Chromium system☆87Jan 7, 2026Updated 3 months ago
- Somatic (mosaic) SNV caller for 10X Genomics data using random forest classification and feature-based filters☆23Apr 1, 2019Updated 7 years ago
- Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]☆11Mar 6, 2024Updated 2 years ago
- Structural variation and indel detection by local assembly☆255Mar 17, 2026Updated 3 weeks ago
- MIP based joint inference of copy number and rearrangement state in cancer whole genome sequence data.☆59Mar 23, 2025Updated last year
- C++ htslib/bwa-mem/fermi interface for interrogating sequence data☆138Sep 16, 2025Updated 6 months ago
- ☆21Dec 26, 2025Updated 3 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- convert CHAIN format to PAF format☆15Dec 17, 2024Updated last year
- ☆26Dec 9, 2022Updated 3 years ago
- Interface to 10x Genomics' 1.3 m single cell data set☆18Aug 2, 2018Updated 7 years ago
- Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities☆25Oct 31, 2019Updated 6 years ago
- beRi "beri environments for R installations" is an R environment, R installation, and R package management system for R☆14Dec 23, 2025Updated 3 months ago
- This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…☆18Mar 24, 2026Updated 2 weeks ago
- EXPERIMENTAL implementation of side graph☆10Apr 16, 2015Updated 10 years ago
- dEploid is designed for deconvoluting mixed genomes with unknown proportions. Traditional ‘phasing’ programs are limited to diploid organ…☆21Jan 20, 2025Updated last year
- nimble aligner that will map your reads to the references on a laptop☆11Jun 29, 2017Updated 8 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- sort genomic data☆36Nov 7, 2025Updated 5 months ago
- collection of data structures and algorithms☆19Mar 19, 2019Updated 7 years ago
- picking up low allelic-fraction, somatic variants from tumor samples☆14Jan 4, 2018Updated 8 years ago
- Fast & accurate alignment of barcoded short-reads☆32Jun 29, 2023Updated 2 years ago
- Scaffolding of genomic assemblies with RNA seq data☆15Oct 8, 2015Updated 10 years ago
- Bam Read Index - Extract alignments from a bam file by readname☆28Apr 22, 2024Updated last year
- ☆12Sep 11, 2025Updated 7 months ago
- This repo is deprecated. Please use gfatools instead.☆15Aug 17, 2018Updated 7 years ago
- Basic operations on the space of numerical functions defined on the genome using lazy evaluators for flexibility and efficiency☆154Nov 6, 2024Updated last year
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- ☆20Feb 18, 2025Updated last year
- The CHM1-NA12878 benchmark for single-sample SNP/INDEL calling from WGS Illumina data☆32Feb 20, 2018Updated 8 years ago
- Quick Read Quality Control☆20Feb 28, 2023Updated 3 years ago
- De novo genome assembly and multisample variant calling☆112Mar 28, 2019Updated 7 years ago
- Kmer based genotyper for short reads.☆23Oct 19, 2021Updated 4 years ago
- R package for applying Gamma-Poisson regression to identify statistical enrichment or depletion of somatic mutations in regions after cor…☆32Oct 29, 2025Updated 5 months ago
- convert alignment bam to pairwise alignment or multiple sequence alignment (msa) at genome specific region☆13May 21, 2024Updated last year