vcf2tsvGenomic VCF to tab-separated values
Stars: ✭ 27 (-35.71%)
cutevariantA standalone and free application to explore genetics variations from VCF file
Stars: ✭ 61 (+45.24%)
fucFrequently used commands in bioinformatics
Stars: ✭ 23 (-45.24%)
ilusA handy variant calling pipeline generator for whole genome re-sequencing (WGS) and whole exom sequencing data (WES) analysis. 一个简易且全面的 WGS/WES 分析流程生成器.
Stars: ✭ 64 (+52.38%)
cpsrCancer Predisposition Sequencing Reporter (CPSR)
Stars: ✭ 44 (+4.76%)
indelopefind large indels (in the blind spot between GATK/freebayes and SV callers)
Stars: ✭ 38 (-9.52%)
snpstools for reading, writing, merging, and remapping SNPs
Stars: ✭ 57 (+35.71%)
vcfstatsPowerful statistics for VCF files
Stars: ✭ 32 (-23.81%)
spark-vcfSpark VCF data source implementation for Dataframes
Stars: ✭ 15 (-64.29%)
SNPGenieProgram for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
Stars: ✭ 81 (+92.86%)
2vcfconvert 23andme or Ancestry.com raw genotype calls into VCF format, with dbSNP annotations
Stars: ✭ 42 (+0%)
calcardbackupcalcardbackup: moved to https://codeberg.org/BernieO/calcardbackup
Stars: ✭ 67 (+59.52%)
vcf stuff📊Evaluating, filtering, comparing, and visualising VCF
Stars: ✭ 19 (-54.76%)
CuteVCFsimple viewer for variant call format using htslib
Stars: ✭ 30 (-28.57%)
laravel-vcardA fluent builder class for vCard files.
Stars: ✭ 29 (-30.95%)
vembranevembrane filters VCF records using python expressions
Stars: ✭ 46 (+9.52%)
Variants2NeoantigenA neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)
Stars: ✭ 27 (-35.71%)
csv2vcf🔧 Simple script in python to convert CSV files to VCF
Stars: ✭ 66 (+57.14%)
cljamA DNA Sequence Alignment/Map (SAM) library for Clojure
Stars: ✭ 85 (+102.38%)
Hap.pyHaplotype VCF comparison tools
Stars: ✭ 249 (+492.86%)
Snippy✂️ ⚡️ Rapid haploid variant calling and core genome alignment
Stars: ✭ 245 (+483.33%)
Cyvcf2cython + htslib == fast VCF and BCF processing
Stars: ✭ 243 (+478.57%)
Vcf2mafConvert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
Stars: ✭ 229 (+445.24%)
HtsjdkA Java API for high-throughput sequencing data (HTS) formats.
Stars: ✭ 220 (+423.81%)
SurvivorToolset for SV simulation, comparison and filtering
Stars: ✭ 180 (+328.57%)
PcgrPersonal Cancer Genome Reporter (PCGR)
Stars: ✭ 168 (+300%)
BiosyntaxSyntax highlighting for computational biology
Stars: ✭ 164 (+290.48%)
Vcf2phylipConvert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
Stars: ✭ 126 (+200%)
GenomicsA collection of scripts and notes related to genomics and bioinformatics
Stars: ✭ 101 (+140.48%)
ParagraphGraph realignment tools for structural variants
Stars: ✭ 92 (+119.05%)
TruvariStructural variant toolkit for VCFs
Stars: ✭ 85 (+102.38%)
SvtyperBayesian genotyper for structural variants
Stars: ✭ 79 (+88.1%)
GenozipCompressor for genomic files (FASTQ, SAM/BAM, VCF, FASTA, GVF, 23andMe...), up to 5x better than gzip and faster too
Stars: ✭ 53 (+26.19%)
16gtSimultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
Stars: ✭ 26 (-38.1%)
Tiledb VcfEfficient variant-call data storage and retrieval library using the TileDB storage library.
Stars: ✭ 26 (-38.1%)
GvannoGeneric germline variant annotation pipeline
Stars: ✭ 23 (-45.24%)
Helmsmanhighly-efficient & lightweight mutation signature matrix aggregation
Stars: ✭ 19 (-54.76%)
HailScalable genomic data analysis.
Stars: ✭ 706 (+1580.95%)
HtslibC library for high-throughput sequencing data formats
Stars: ✭ 529 (+1159.52%)
VcardThis vCard PHP library can easily parse or generate/export vCards as .vcf
Stars: ✭ 333 (+692.86%)
PygenoPersonalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
Stars: ✭ 261 (+521.43%)
Vcfannoannotate a VCF with other VCFs/BEDs/tabixed files
Stars: ✭ 259 (+516.67%)
VCF-kitVCF-kit: Assorted utilities for the variant call format
Stars: ✭ 94 (+123.81%)
23andme2vcfconvert your 23andme raw file to VCF | DEPRECATED, please see https://github.com/plantimals/2vcf
Stars: ✭ 91 (+116.67%)
OntologiesHome of the Genomic Feature and Variation Ontology (GFVO)
Stars: ✭ 16 (-61.9%)
TypeTEGenotyping of segregating mobile elements insertions
Stars: ✭ 15 (-64.29%)
vcf2gwasPython API for comprehensive GWAS analysis using GEMMA
Stars: ✭ 27 (-35.71%)
SVCollectorMethod to optimally select samples for validation and resequencing
Stars: ✭ 20 (-52.38%)
echolocatoRAutomated statistical and functional fine-mapping pipeline with extensive API access to datasets.
Stars: ✭ 13 (-69.05%)
open-cravatA modular annotation tool for genomic variants
Stars: ✭ 74 (+76.19%)