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The Top 23 C Genomics Open Source Projects

Open source projects categorized as C Genomics
Minimap2 ⭐ 1,613
A versatile pairwise aligner for genomic and spliced nucleotide sequences
dependent packages 32total releases 27most recent commit 3 months agopypi mappy} Downloads
Bwa ⭐ 1,282
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
total releases 1most recent commit a year ago
Minigraph ⭐ 367
Proof-of-concept seq-to-graph mapper and graph generator
total releases 1most recent commit 4 months ago
Genometools ⭐ 261
GenomeTools genome analysis system.
most recent commit 5 months ago
Bedops ⭐ 244
🔬 BEDOPS: high-performance genomic feature operations
total releases 1most recent commit 2 years ago
Wgsim ⭐ 188
Reads simulator
most recent commit 3 years ago
Gfatools ⭐ 181
Tools for manipulating sequence graphs in the GFA and rGFA formats
most recent commit 6 months ago
Biowasm ⭐ 165
WebAssembly modules for genomics
total releases 1most recent commit 3 months ago
Bio Playground ⭐ 146
miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.
most recent commit 5 years ago
Genozip ⭐ 144
A modern compressor for genomic files (FASTQ, SAM/BAM/CRAM, VCF, FASTA, GFF/GTF/GVF, 23andMe...), up to 5x better than gzip and faster too
total releases 132most recent commit 3 months ago
Cgranges ⭐ 144
A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)
most recent commit 10 months ago
Psmc ⭐ 120
Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model
most recent commit a year ago
Gkl ⭐ 98
Accelerated kernel library for genomics
dependent packages 7total releases 35most recent commit 8 months ago
Mccortex ⭐ 86
De novo genome assembly and multisample variant calling
most recent commit 5 years ago
Bgt ⭐ 76
Flexible genotype query among 30,000+ samples whole-genome
most recent commit 5 years ago
Hickit ⭐ 69
TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
most recent commit 3 years ago
Fermi ⭐ 68
A WGS de novo assembler based on the FMD-index for large genomes
most recent commit 10 years ago
Fermi Lite ⭐ 67
Standalone C library for assembling Illumina short reads in small regions
most recent commit a year ago
Dna Nn ⭐ 51
Model and predict short DNA sequence features with neural networks
most recent commit 5 years ago
Unimap ⭐ 49
A fork of minimap2 optimized for assembly-to-reference alignment
most recent commit 3 years ago
Bio Pipeline ⭐ 45
My collection of light bioinformatics analysis pipelines for specific tasks
most recent commit 4 years ago
Sample ⭐ 44
Performs memory-efficient reservoir sampling on very large input files delimited by newlines
most recent commit 4 years ago
Lrsim ⭐ 38
10x Genomics Reads Simulator
most recent commit 5 years ago
The 4 Most Depended On C Genomics Open Source Projects
Minimap2 ⭐ 1,613
A versatile pairwise aligner for genomic and spliced nucleotide sequences
dependent packages 32total releases 27latest release December 26, 2021most recent commit 3 months agopypi mappy} Downloads
Bedmatrix ⭐ 10
A matrix-like wrapper around PLINK .bed files
dependent packages 9total releases 12latest release July 08, 2020most recent commit 4 years ago
Gkl ⭐ 98
Accelerated kernel library for genomics
dependent packages 7total releases 35latest release July 07, 2023most recent commit 8 months ago
Pybbi ⭐ 24
Python bindings to UCSC BigWig and BigBed library
dependent packages 2total releases 12latest release May 28, 2023most recent commit 4 months agopypi pybbi} Downloads
The 10 Latest Releases In C Genomics Open Source Projects
Variantkey Nim ⭐ 5
nim-wrapper for variantkey -- (chrom, pos, ref, alt) -> uint64
latest release November 27, 2023most recent commit 5 years ago
Gkl ⭐ 98
Accelerated kernel library for genomics
dependent packages 7total releases 35latest release July 07, 2023most recent commit 8 months ago
Minigraph ⭐ 367
Proof-of-concept seq-to-graph mapper and graph generator
total releases 1latest release June 21, 2023most recent commit 4 months ago
Pybbi ⭐ 24
Python bindings to UCSC BigWig and BigBed library
dependent packages 2total releases 12latest release May 28, 2023most recent commit 4 months agopypi pybbi} Downloads
Plastid ⭐ 32
Position-wise analysis of sequencing and genomics data
total releases 12latest release May 05, 2022most recent commit 2 years ago
Minimap2 ⭐ 1,613
A versatile pairwise aligner for genomic and spliced nucleotide sequences
dependent packages 32total releases 27latest release December 26, 2021most recent commit 3 months agopypi mappy} Downloads
Bwa ⭐ 1,282
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
total releases 1latest release March 03, 2021most recent commit a year ago
Bedops ⭐ 244
:microscope: BEDOPS: high-performance genomic feature operations
total releases 1latest release March 03, 2021most recent commit 2 years ago
Bedmatrix ⭐ 10
A matrix-like wrapper around PLINK .bed files
dependent packages 9total releases 12latest release July 08, 2020most recent commit 4 years ago
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