alimanfoo / vcfnpLinks
Load numpy arrays and HDF5 files from VCF (variant call format)
☆31Updated 8 years ago
Alternatives and similar repositories for vcfnp
Users that are interested in vcfnp are comparing it to the libraries listed below
Sorting:
- Stupid Simple Structural Variant View☆25Updated 9 years ago
- a wee tool for random access into BGZF files.☆86Updated 7 years ago
- probability of mendelian error in trios.☆11Updated 10 years ago
- Reference-free variant discovery in large eukaryotic genomes☆42Updated 4 years ago
- ☆36Updated 5 years ago
- pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)☆49Updated 8 years ago
- create a gemini-compatible database from a VCF☆55Updated 5 years ago
- a pileup library that embraces the huge☆43Updated 5 years ago
- Parallel merging, squaring off and ensemble calling for genomic variants☆20Updated 6 years ago
- Chanjo provides a better way to analyze coverage data in clinical sequencing.☆50Updated 2 months ago
- prioritize effects of variant annotations from VEP, SnpEff, et al.☆34Updated last year
- A fast Python library for VCF files leveraging Cython for speed.☆52Updated 7 years ago
- vgraph is a command line application and Python library to compare genetic variants using variant graphs. ``vgraph`` utilizes a graph re…☆43Updated 4 years ago
- Efficient handling of FASTQ files from Python☆51Updated 2 months ago
- Genome-wide reconstruction of complex structural variants☆39Updated 3 years ago
- sort genomic data☆36Updated 3 months ago
- What's The Function of these genes?☆22Updated 8 years ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Updated 7 years ago
- python wrapper to dpryan79's bigwig library using cffi☆19Updated 9 years ago
- conda recipes for genomic data☆84Updated 4 years ago
- Fast calculations of linkage-disequilibrium in large-scale human cohorts☆44Updated 6 years ago
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Updated 8 years ago
- SMBL - SnakeMake Bioinformatics Library. Automatic installation of bioinformatics software in your SnakeMake pipelines.☆23Updated 8 years ago
- Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities☆25Updated 6 years ago
- Toil workflows for common genomic pipelines☆33Updated 6 years ago
- BigWig manpulation tools using libBigWig and htslib☆30Updated last year
- filtering trio-based genetic variants in VCFs for clinical review☆21Updated 5 years ago
- SV detection from paired end reads mapping☆38Updated 15 years ago
- BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants☆25Updated 9 years ago
- a string to graph aligner☆41Updated 9 years ago