snp-genotyping
There are 26 repositories under snp-genotyping topic.
seppinho/haplogrep-cmd
HaploGrep - mtDNA haplogroup classification. Supporting rCRS and RSRS.
lvclark/polyRAD
Genotype Calling with Uncertainty from Sequencing Data in Polyploids 🍌🍓🥔🍠🥝
pblischak/polyploid-genotyping
SNP genotyping in polyploids
alinja/snipsa
Tools for analyzing raw DNA test data files. Shows Y chromosome and mitochondrial mtDNA haplogroups. LGPLv3 - use freely but share improvements.
gear-genomics/ancient
Ancestry inference with convolutional neural networks
lmc297/SNPBac
SNP and variant calling pipeline for bacteria
igsr/igsr_analysis
This repo contains code that is relevant for the analysis (Mapping, BAM qc, Variant Calling, Filtering etc...) of IGSR data
y9c/cpup
Convert mpileup format to base count tsv table
samleenz/rnaseq-variant-gatk
Variant calling + processing pipline using GATK based in Snakemake
UDC-GAC/mpi3snp
GWAS third-level epistatic search tool for cluster architectures
Vvitali/DNAexplorer
DNA explorer - app for observing decrypted DNA-chains in digital format, app show information about single nucleotide polymorphisms, and provide a brief describtion - it may helps to determine if you have certain genetic predisposition to diseases, and show hidden information encoded in your DNA (your ancestries, phenotypes, predisposition to sport)
kelly-sovacool/tiger_salamander_project
SNP pipeline using Snakemake for the Weisrock Lab's Tiger Salamander project.
ramesh8v/chad_db-BRIL
Wheat BRIL database created using FLASK server side, angularjs is heavily used at front end
BaccarelliLab/Main
Guide for the Baccarelli Lab GitHub
eacooper400/RAD_Pipeline_Info
Bioinformatics Pipeline for dRADseq Data
gabrielkg/croissant
Fast and simple haplotype counting.
natmurad/variantCalling
Workflow to perform a Variant Calling Analysis
RichardBekoe/Advanced-Computational-Biology-Assignment-1
Advanced Computational Biology Project Assignment
TC-Hewitt/OatCrownRust
Custom scripts and workflows used in the genomics and population analysis of oat crown rust (Puccinia coronata f. sp. avenae) preprint (bioRxiv 2023.09.18.557855). All steps performed in Linux environment or R.
wuaipinglab/SARS-CoV-2_early_outbreak
SARS-CoV-2 early outbreak analysis. Two polymorphism sites 8517 and 27641 (CDS numbering) were found to genotype the early strains.
adiamb/Remove-duplicate-snps-plink
A python script to remove duplicate snps from plink files and recode the resultant files into plink binaries free of duplicate snps
BCCDC-PHL/call-variants
Align against a reference genome and call variants
codecreatede/pangenealign.jl
julia implementation for the analysis of pangenes
Grelot/aker--beetGenomeEnvironmentAssociation
Codes i wrote for the scientific paper "Predicting genotype environmental range from genome–environment associations"
kgturner/BluebonnetGBS
Population genetic analyses of seeded and wild populations of Texas bluebonnet (Lupinus texensis).
ralemy/seq-lava
Implementation of LAVA algorithm in Seq language.