spark-vcfSpark VCF data source implementation for Dataframes
Stars: ✭ 15 (-50%)
Mutual labels: genomics, vcf, variants
PygenoPersonalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
Stars: ✭ 261 (+770%)
Mutual labels: genomics, vcf
Vcfannoannotate a VCF with other VCFs/BEDs/tabixed files
Stars: ✭ 259 (+763.33%)
Mutual labels: genomics, vcf
GenozipCompressor for genomic files (FASTQ, SAM/BAM, VCF, FASTA, GVF, 23andMe...), up to 5x better than gzip and faster too
Stars: ✭ 53 (+76.67%)
Mutual labels: genomics, vcf
MTBseq sourceMTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.
Stars: ✭ 26 (-13.33%)
Mutual labels: genomics, variants
rare-disease-wf(WIP) best-practices workflow for rare disease
Stars: ✭ 47 (+56.67%)
Mutual labels: genomics, variants
Tiledb VcfEfficient variant-call data storage and retrieval library using the TileDB storage library.
Stars: ✭ 26 (-13.33%)
Mutual labels: genomics, vcf
vcf stuff📊Evaluating, filtering, comparing, and visualising VCF
Stars: ✭ 19 (-36.67%)
Mutual labels: vcf, variants
GenomicsA collection of scripts and notes related to genomics and bioinformatics
Stars: ✭ 101 (+236.67%)
Mutual labels: genomics, vcf
HtsjdkA Java API for high-throughput sequencing data (HTS) formats.
Stars: ✭ 220 (+633.33%)
Mutual labels: genomics, vcf
Cyvcf2cython + htslib == fast VCF and BCF processing
Stars: ✭ 243 (+710%)
Mutual labels: genomics, vcf
indelopefind large indels (in the blind spot between GATK/freebayes and SV callers)
Stars: ✭ 38 (+26.67%)
Mutual labels: genomics, vcf
variantkeyNumerical Encoding for Human Genetic Variants
Stars: ✭ 32 (+6.67%)
Mutual labels: genomics, variants
OntologiesHome of the Genomic Feature and Variation Ontology (GFVO)
Stars: ✭ 16 (-46.67%)
Mutual labels: genomics, vcf
cljamA DNA Sequence Alignment/Map (SAM) library for Clojure
Stars: ✭ 85 (+183.33%)
Mutual labels: genomics, vcf
HailScalable genomic data analysis.
Stars: ✭ 706 (+2253.33%)
Mutual labels: genomics, vcf
SvtyperBayesian genotyper for structural variants
Stars: ✭ 79 (+163.33%)
Mutual labels: genomics, vcf
Hap.pyHaplotype VCF comparison tools
Stars: ✭ 249 (+730%)
Mutual labels: genomics, vcf
HLAxHLA: Fast and accurate HLA typing from short read sequence data
Stars: ✭ 84 (+180%)
Mutual labels: genomics, variants
gubbinsRapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
Stars: ✭ 103 (+243.33%)
Mutual labels: genomics