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The Top 23 Sequencing Vcf Open Source Projects

Open source projects categorized as Sequencing Vcf
Categories > Science > Sequencing
Categories > Science > Vcf
Picard ⭐ 914
A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
dependent packages 12total releases 176most recent commit 3 months ago
Truvari ⭐ 284
Structural variant toolkit for VCFs
total releases 23most recent commit 16 days ago
Htsjdk ⭐ 271
A Java API for high-throughput sequencing data (HTS) formats.
dependent packages 87total releases 78most recent commit 4 months ago
Genomics ⭐ 154
A collection of scripts and notes related to genomics and bioinformatics
most recent commit 2 years ago
Ngscheckmate ⭐ 106
Software program for checking sample matching for NGS data
most recent commit 8 months ago
Parliament2 ⭐ 83
Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
most recent commit 3 years ago
Neat Genreads ⭐ 72
NEAT read simulation tools
most recent commit 3 years ago
Opengene.jl ⭐ 61
(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia
most recent commit 2 years ago
Sv Plaudit ⭐ 47
Pipeline for structural variant image curation and analysis.
most recent commit 2 years ago
Snpsplit ⭐ 43
Allele-specific alignment sorting
most recent commit a year ago
Platinumgenomes ⭐ 42
The Platinum Genomes Truthset
most recent commit 6 years ago
Seqminer ⭐ 28
Query sequence data (VCF/BCF1/BCF2, Tabix, BGEN, PLINK) in R
dependent packages 8total releases 39most recent commit 5 months ago
Qc3 ⭐ 27
QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.
most recent commit 8 years ago
Variant Filter ⭐ 25
A false-positive filter for variants called from massively parallel sequencing
most recent commit 7 years ago
Automap ⭐ 19
Tool to find regions of homozygosity (ROHs) from sequencing data.
most recent commit 7 months ago
Helmsman ⭐ 19
highly-efficient & lightweight mutation signature matrix aggregation
most recent commit 3 years ago
Crisp ⭐ 19
Code for multi-sample variant calling from sequence data of pooled or unpooled DNA samples
most recent commit 9 months ago
Useq ⭐ 17
180+ Java applications for analyzing next generation sequencing data from ChIPSeq, RNASeq, BisSeq, DNASeq, variant annotation/ filtering, alignment/VCF QC, capture array design, IGV/ DAS2/IGB/UCSC file manipulation, etc. Both GUI and cmd line interfaces.
most recent commit 4 months ago
Vargeno ⭐ 15
Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.
most recent commit 5 years ago
Parsecnv2 ⭐ 14
Parse Copy Number Variation from Array and Sequencing
most recent commit 5 months ago
Groovy Ngs Utils ⭐ 12
A collection of utilities for working with next generation (MPS) sequencing data in Groovy
most recent commit 3 months ago
Daisy ⭐ 12
Horizontal Gene Transfer Detection by Mapping Sequencing Reads
most recent commit 7 years ago
Hadoopcnv ⭐ 12
HadoopCNV is a MapReduce-based copy number variation caller for genome sequencing data
most recent commit 7 years ago
The 3 Most Depended On Sequencing Vcf Open Source Projects
Htsjdk ⭐ 271
A Java API for high-throughput sequencing data (HTS) formats.
dependent packages 87total releases 78latest release October 13, 2023most recent commit 4 months ago
Picard ⭐ 914
A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
dependent packages 12total releases 176latest release November 14, 2023most recent commit 3 months ago
Seqminer ⭐ 28
Query sequence data (VCF/BCF1/BCF2, Tabix, BGEN, PLINK) in R
dependent packages 8total releases 39latest release September 02, 2023most recent commit 5 months ago
The 4 Latest Releases In Sequencing Vcf Open Source Projects
Picard ⭐ 914
A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
dependent packages 12total releases 176latest release November 14, 2023most recent commit 3 months ago
Htsjdk ⭐ 271
A Java API for high-throughput sequencing data (HTS) formats.
dependent packages 87total releases 78latest release October 13, 2023most recent commit 4 months ago
Seqminer ⭐ 28
Query sequence data (VCF/BCF1/BCF2, Tabix, BGEN, PLINK) in R
dependent packages 8total releases 39latest release September 02, 2023most recent commit 5 months ago
Truvari ⭐ 284
Structural variant toolkit for VCFs
total releases 23latest release August 07, 2023most recent commit 16 days ago
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