Basic R package for VCF reformatting (json and tab-delimited text)

Suit of R-scripts to perform landscape genomic analyses

Final task for the course Unix and NGS data at the Faculty of Science, Charles University (December 2020)

Automatic annotation generation of the Variants in the VCF file into a text file

The goal of this project is to create a R package and executable scripts to visualize variants in Variant Call Format (VCF) files and Bcftools processed tab-delimited files.

R-based pipeline/script to implement a Genome-Wide Association Study (GWAS) analysis based on the RAINBOWR package

A variant annotation tool that parses vcf files and fetches variant information from the Ensembl Variant Effect Predictor (VEP) REST API

visual analysis of your VCF files

Scripts in R for Landscape Genomics Analyses v.2

Scripts in R for analyses of Isolation by Distance (IBD) - PART 2 in LANDSCAPE GENOMICS PIPELINE

Splicing Prediction Pipeline

Read/write VCF contact files with R

Repository for RecallME-v.0.1 a variant calling pipelines benchmarker and optimizer

Population Genomics Pipeline used for SNPs data from VCF files.

A simple tool for SNP mutation type determination.

An R package and Web App for efficient quality control of human whole-genome and whole-exome datasets

A streamlined pipeline for germline variant calling on chromosome 11 using GATK. This repository includes workflows for data preprocessing, variant discovery, and annotation, with a focus on understanding genetic variations linked to disease-associated genes.

R package for working with vcf files

An easy-to-use Python tool for visualizing multi-sample VCF SNP genotypes as a categorical heatmap, where homozygous reference, heterozygous, homozygous alternate & missing data are color-coded. Ideal for genetic studies, comparative analyses & QC of variant data.