84 Open source projects that are alternatives of or similar to Variants2Neoantigen

Frequently used commands in bioinformatics

Personal Cancer Genome Reporter (PCGR)

Cancer Predisposition Sequencing Reporter (CPSR)

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

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

Annotation of VCF variants with functional impact and from databases (executable+library)

A handy variant calling pipeline generator for whole genome re-sequencing (WGS) and whole exom sequencing data (WES) analysis. 一个简易且全面的 WGS/WES 分析流程生成器.

Powerful statistics for VCF files

Syntax highlighting for computational biology

Scalable genomic data analysis.

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

Python API for comprehensive GWAS analysis using GEMMA

vCard Serializer and Parser for C#

Genomic VCF to tab-separated values

Toolset for SV simulation, comparison and filtering

find large indels (in the blind spot between GATK/freebayes and SV callers)

Generic germline variant annotation pipeline

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

✂️ ⚡️ Rapid haploid variant calling and core genome alignment

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

📊Evaluating, filtering, comparing, and visualising VCF

A fluent builder class for vCard files.

Summarize, Analyze and Visualize MAF files from TCGA or in house studies.

A collection of scripts and notes related to genomics and bioinformatics

annotate a VCF with other VCFs/BEDs/tabixed files

A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.

Genotyping of segregating mobile elements insertions

Bayesian genotyper for structural variants

Method to optimally select samples for validation and resequencing

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

A standalone and free application to explore genetics variations from VCF file

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

Lollipop-style mutation diagrams for annotating genetic variations.

Haplotype VCF comparison tools

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

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

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

tools for reading, writing, merging, and remapping SNPs

Spark VCF data source implementation for Dataframes

highly-efficient & lightweight mutation signature matrix aggregation

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

Syntax highlighting for computational biology

Learning the Variant Call Format

C library for high-throughput sequencing data formats

simple viewer for variant call format using htslib

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

vembrane filters VCF records using python expressions

Training and evaluating a variational autoencoder for pan-cancer gene expression data

DELLY2: Structural variant discovery by integrated paired-end and split-read analysis

cython + htslib == fast VCF and BCF processing

Chromosome visualization for the web

VCF-kit: Assorted utilities for the variant call format

Microassembly based somatic variant caller for NGS data

Graph realignment tools for structural variants

Convert Telegram Contacts JSON File to VCF File

🔧 Simple script in python to convert CSV files to VCF

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

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

Structural variant toolkit for VCFs

Home of the Genomic Feature and Variation Ontology (GFVO)