Topic: "variant-call-format"
labsquare/cutevariant
A standalone and free application to explore genetics variations from VCF file
Language: Python - Size: 69.2 MB - Last synced at: 7 days ago - Pushed at: about 1 year ago - Stars: 106 - Forks: 21
tsnorri/libbio
Classes and functions for use with bioinformatics.
Language: C++ - Size: 1.49 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 3 - Forks: 0
iqbal-lab-org/ivcfmerge
A utility to merge a large number of VCF files incrementally
Language: Python - Size: 96.7 KB - Last synced at: about 2 years ago - Pushed at: about 4 years ago - Stars: 2 - Forks: 0
Matthew-Mosior/Basic-Variant-Parser
A Haskell script that performs basic parsing on the default output of ensembl-vep and variant-calling format (vcf) files.
Language: Haskell - Size: 4.96 MB - Last synced at: 10 days ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0
japeto/vcf2xls
Your VCF converted to XLS from now. VCF stands for Variant Call Format and it is used by bioinformatics projects to encode structural genetic variants.
Language: JavaScript - Size: 5.73 MB - Last synced at: over 2 years ago - Pushed at: about 6 years ago - Stars: 1 - Forks: 0
pmadanecki/htdp
High-throughput Tabular Data Processor (HTDP)
Size: 111 MB - Last synced at: over 1 year ago - Pushed at: about 7 years ago - Stars: 1 - Forks: 0
gmboowa/shared_variant_analyzer
This script analyzes variant call format (VCF) files to identify genetic variants shared across multiple samples. Given a list of VCF paths, it reports variants present in ≥10-100% of samples (10% increments), showing chromosome, position, alleles, sample count, and percentage. Processes genotype data to ensure accurate variant presence detection
Language: Perl - Size: 38.1 KB - Last synced at: 23 days ago - Pushed at: 23 days ago - Stars: 0 - Forks: 0
anand-imcm/get-variant-info
A WDL-based workflow for extraction of variants and their associated info from large VCF files
Language: Python - Size: 58.6 KB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0
maurya-anand/liftover
Convert genomic coordinates from the Human Genome version 19 (hg19) to version 38 (hg38)
Language: Python - Size: 26.4 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0
NCI-CGR/HPV_low_VAF_SNV_prediction
Predicting true low-VAF SNVs in HPV using triplicate NGS samples and machine learning
Language: Jupyter Notebook - Size: 17.3 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0
brendancsmith/vcf-isec
A simple python implementation of Variant Call Format intersection and complements for identifying genetic mutations
Language: Python - Size: 93.8 KB - Last synced at: 3 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
tmsincomb/DeepVCF
Variant Calling with Deep Learning for Prokaryotic genomes using TensorFlow. Adds (0 <= P(Variant) <= 1) to VCF files under INFO as abbreviated "ACC=".
Language: Jupyter Notebook - Size: 40.5 MB - Last synced at: 2 days ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0
bdolmo/vcf2json
Convert an standard VCF to JSON format
Language: Python - Size: 1.95 KB - Last synced at: about 2 years ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 1
sghignone/samtools
SAMtools and BCFtools (v1.10) for manipulating next-generation sequencing data, from bioconda
Language: Dockerfile - Size: 1000 Bytes - Last synced at: almost 2 years ago - Pushed at: about 5 years ago - Stars: 0 - Forks: 0
Matthew-Mosior/Basic-Variant-Selector
A Haskell script for selecting variants from a variant calling format (vcf) file based on variants present in a mgibed file.
Language: Haskell - Size: 1.83 MB - Last synced at: 10 days ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0