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
Sorting:
- Linked-Read Alignment Tool☆26May 16, 2019Updated 6 years ago
- Genome-wide reconstruction of complex structural variants☆39Jun 21, 2022Updated 3 years ago
- 10x Genomics Reads Simulator☆46Dec 26, 2023Updated 2 years ago
- Utility functions to extend and optimize GenomicRanges functionality.☆10Mar 6, 2025Updated 11 months ago
- Somatic (mosaic) SNV caller for 10X Genomics data using random forest classification and feature-based filters☆23Apr 1, 2019Updated 6 years ago
- List of tools and resources related to the 10x Genomics GEMCode/Chromium system☆87Jan 7, 2026Updated last month
- beRi "beri environments for R installations" is an R environment, R installation, and R package management system for R☆14Dec 23, 2025Updated 2 months ago
- R package for visualizing complex and multi-track 1D and 2D genomic data in GenomicRanges framework☆17Jan 7, 2025Updated last year
- Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]☆11Mar 6, 2024Updated last year
- Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities☆25Oct 31, 2019Updated 6 years ago
- Filtering and profiling of next-generational sequencing data using region-specific rules☆79Oct 30, 2023Updated 2 years ago
- Bam Read Index - Extract alignments from a bam file by readname☆28Apr 22, 2024Updated last year
- ☆21Dec 26, 2025Updated 2 months ago
- MIP based joint inference of copy number and rearrangement state in cancer whole genome sequence data.☆59Mar 23, 2025Updated 11 months ago
- EXPERIMENTAL implementation of side graph☆10Apr 16, 2015Updated 10 years ago
- (a) (p)erfect (c)ircle? ... tests DNA sequences for overlapping ends, then trims and rejoins, and aligns reads to test the join☆11Apr 29, 2021Updated 4 years ago
- Scaffolding of genomic assemblies with RNA seq data☆15Oct 8, 2015Updated 10 years ago
- Kmer based genotyper for short reads.☆23Oct 19, 2021Updated 4 years ago
- a pileup library that embraces the huge☆43Oct 2, 2020Updated 5 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
- ☆12Sep 11, 2025Updated 5 months ago
- ProSolo, variant calling from single cell DNA-seq data, or: bulk backing vocals for single cell solos.☆21Sep 1, 2021Updated 4 years ago
- Interface to 10x Genomics' 1.3 m single cell data set☆18Aug 2, 2018Updated 7 years ago
- Structural variation and indel detection by local assembly☆252Sep 16, 2025Updated 5 months ago
- Improved multi-sample transcript abundance estimates using adaptive priors☆20Oct 29, 2018Updated 7 years ago
- Scaffolding with assembly likelihood optimization☆21Dec 14, 2020Updated 5 years ago
- convert alignment bam to pairwise alignment or multiple sequence alignment (msa) at genome specific region☆13May 21, 2024Updated last year
- convert CHAIN format to PAF format☆15Dec 17, 2024Updated last year
- 🌈Scaffold genome sequence assemblies using linked or long read sequencing data☆95Nov 6, 2024Updated last year
- de novo targeted gene assembly☆22Apr 16, 2021Updated 4 years ago
- ☆26Dec 9, 2022Updated 3 years ago
- Fully automated generation of UCSC assembly hubs☆35Oct 2, 2024Updated last year
- nimble aligner that will map your reads to the references on a laptop☆11Jun 29, 2017Updated 8 years ago
- Trigger the Google Genomics Pipeline API with CWL☆11Feb 7, 2017Updated 9 years ago
- robust matching of small variant datasets using flexible scoring schemes☆11Mar 26, 2020Updated 5 years ago
- Very very long reads, indeed☆13Apr 30, 2017Updated 8 years ago
- sort genomic data☆36Nov 7, 2025Updated 3 months ago
- Microassembly based somatic variant caller for NGS data☆154Jun 23, 2022Updated 3 years ago
- Standalone C library for assembling Illumina short reads in small regions☆72Dec 15, 2022Updated 3 years ago