108 Open source projects that are alternatives of or similar to snps

A collection of scripts and notes related to genomics and bioinformatics

A Java API for high-throughput sequencing data (HTS) formats.

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform

A fast 23andMe genome text file parser, now superseded by arv

A fast 23andMe DNA parser and inferrer for Python

✂️ ⚡️ Rapid haploid variant calling and core genome alignment

Estimate local SNP heritability and genetic covariance from GWAS summary association statistics.

Toolset for SV simulation, comparison and filtering

Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

Datastructures and algorithms for working with genetic variation

A Framework for Coalescent Simulation in R

vCard Serializer and Parser for C#

simple viewer for variant call format using htslib

Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets

Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms

calcardbackup: moved to https://codeberg.org/BernieO/calcardbackup

Syntax highlighting for computational biology

programs and scripts, mainly python, for analyses related to nucleic or protein sequences

Structural variant toolkit for VCFs

Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data

Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model

A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)

Generic germline variant annotation pipeline

Scalable genomic data analysis.

Learning the Variant Call Format

Syntax highlighting for computational biology

This vCard PHP library can easily parse or generate/export vCards as .vcf

annotate a VCF with other VCFs/BEDs/tabixed files

Haplotype VCF comparison tools

convert 23andme or Ancestry.com raw genotype calls into VCF format, with dbSNP annotations

cython + htslib == fast VCF and BCF processing

Understand DNA structure and how machine learning can be used to work with DNA sequence data.

A DNA Sequence Alignment/Map (SAM) library for Clojure

convert your 23andme raw file to VCF | DEPRECATED, please see https://github.com/plantimals/2vcf

Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.

Personal Cancer Genome Reporter (PCGR)

CoRA Docs

Generate input parameters and coordinates for atomistic and coarse-grained simulations of polymers, ssDNA, and carbohydrates

Graph realignment tools for structural variants

A fluent builder class for vCard files.

Bayesian genotyper for structural variants

Numerical Encoding for Human Genetic Variants

Compressor for genomic files (FASTQ, SAM/BAM, VCF, FASTA, GVF, 23andMe...), up to 5x better than gzip and faster too

vembrane filters VCF records using python expressions

Efficient variant-call data storage and retrieval library using the TileDB storage library.

Ultrafast sequence typing and gene detection from NGS raw reads

highly-efficient & lightweight mutation signature matrix aggregation

🔧 Simple script in python to convert CSV files to VCF

C library for high-throughput sequencing data formats

Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

waka waka

VCF-kit: Assorted utilities for the variant call format

📊Evaluating, filtering, comparing, and visualising VCF

Powerful statistics for VCF files

Spark VCF data source implementation for Dataframes

An Efficient Swiss Army Knife for Population Genomic Analyses in R

This is the code behind the www.impute.me site. It contains algorithms for personal genome analysis, including imputation and polygenic risk score calculation

Convert Telegram Contacts JSON File to VCF File

Wrapper to a number of SNP web APIs