rootstrap/ImputationGeneris Fork of asiadmitchell/ImputationGeneris 📦

DNA Imputation tool for Generis.

Language: R - Size: 5.56 MB - Last synced at: 14 days ago - Pushed at: almost 6 years ago - Stars: 1 - Forks: 1

Chris1221/impute 📦

Automated imputation pipeline for arbitrary dataset and reference panels.

Language: Shell - Size: 5.92 MB - Last synced at: over 1 year ago - Pushed at: over 5 years ago - Stars: 6 - Forks: 3

COMBAT-TB/vcf_snps_utils 📦

Custom command line utility tools to manipulate vcf files

Language: Python - Size: 12.7 MB - Last synced at: about 2 years ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0

SilkeAllmannLab/gwas 📦

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

Language: R - Size: 13 MB - Last synced at: about 2 years ago - Pushed at: over 3 years ago - Stars: 2 - Forks: 1

yenon118/MViz 📦

MViz: A Toolset for Annotating Promoter and CNV Regions Using Genotypic and Phenotypic Differences

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yenon118/SoybeanMViz 📦

SoybeanMViz: A Toolset for Annotating Promoter and CNV Regions Using Genotypic and Phenotypic Differences

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kfarleigh/BioinformaticsBootcamp_2020

This repository contains a workflow to perform genome-environment association analysis with redundancy analysis.

Language: R - Size: 193 KB - Last synced at: about 2 years ago - Pushed at: about 4 years ago - Stars: 2 - Forks: 0

CNuge/snp-placer

Take information about snps on short sequence reads and accurately place the snps in a reference genome

Language: Python - Size: 136 KB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 1

erma0x/hormone-receptors-SNPs-mutation-analysis

Analysis, annotation and prediction of SNPs related to prostate and breast cancer cell lines.

Language: Jupyter Notebook - Size: 6.62 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0

hclimente/martini

🍸R version of SConES, a systems-biology approach to GWAS.

Language: R - Size: 184 MB - Last synced at: 1 day ago - Pushed at: about 1 year ago - Stars: 4 - Forks: 2

InfOmics/DiGAS

A novel computational model for identifying genomic elements (from single exon to entire genomic regions) that are linked to a given phenotypic condition (i.e. a disease) investigating for single nucleotide polymorphisms (SNP).

Language: Python - Size: 14.2 MB - Last synced at: about 2 years ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

darlenewagner/SNP_Wrap_Python

Facilitates post-processing of SNP pipeline outputs

Language: Python - Size: 78.1 KB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

justincbagley/piranha

Scripts for file processing and analysis in phylogenetics and phylogeography

Language: Shell - Size: 13.7 MB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 10 - Forks: 3

naturalis/kiore-project Fork of gsaville/kiore-project

Genomic signatures of the Polynesian rat retrace the Austronesian expansion

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albamalagon/FinalDegreeProject

Language: Python - Size: 18.8 MB - Last synced at: about 2 years ago - Pushed at: almost 4 years ago - Stars: 1 - Forks: 0

natmurad/variantCalling

Workflow to perform a Variant Calling Analysis

Size: 32.2 KB - Last synced at: about 2 years ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0

askhat-aubakirov/snps-count

Developed for personal use in bachelor thesis on SNPs analysis

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mikeoc61/genetics-23andMe

Python program to parse and analyze raw 23andMe data

Language: Python - Size: 34.2 KB - Last synced at: about 2 years ago - Pushed at: about 6 years ago - Stars: 2 - Forks: 1

RhettRautsaw/VariantCaller

VariantCaller is a wrapper for the 2022 gatk & bcftools best practices + phasing with WhatsHap.

Language: Python - Size: 22.5 KB - Last synced at: about 2 years ago - Pushed at: about 3 years ago - Stars: 0 - Forks: 0

alex-sandercock/American_chestnut_WGS

Scripts associated with the Sandercock et al., 2022 paper

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caozhichongchong/snp_finder

Language: Python - Size: 5.33 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

uranus238/RAD-MIG_tools

tools for RAD-seq, MIG-seq processing and analysis

Language: R - Size: 24.4 KB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

andreatangherloni/GenHap

A Novel Computational Method Based on Genetic Algorithms for Haplotype Assembly

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tanyalama/project_red_squirrel_rad

Language: Shell - Size: 1.2 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 1

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)

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NCBI-Hackathons/ExpressiVar

Language: Python - Size: 6.02 MB - Last synced at: 4 months ago - Pushed at: over 5 years ago - Stars: 2 - Forks: 1

kfarleigh/Moments

This repository contains scripts for 3D and 4D demographic models using the program Moments

Language: Python - Size: 1.16 MB - Last synced at: about 2 years ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0

xieguigang/ManhattanPlot

Manhattan plot in VisualBasic

Language: Visual Basic - Size: 1.97 MB - Last synced at: about 1 year ago - Pushed at: over 8 years ago - Stars: 2 - Forks: 4

henryjuho/anavar_utils

A collection of python classes making use of the anavar package simpler from within python.

Language: Python - Size: 84 KB - Last synced at: about 2 years ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0

brettwhitty/bw-msu-tools

Archive of personal scripts repository from my various projects in the Buell Lab at MSU (Jan. 2008 - Apr. 2011)

Language: Perl - Size: 3.76 MB - Last synced at: about 2 years ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

deprekate/breseq_tools

A script to count the number of SPSs per gene

Language: Python - Size: 68.4 KB - Last synced at: 2 months ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0

MikeDacre/LDDirection

Get information about direction of agreement for any two lists of SNPs, based on LDlink and plink

Language: Python - Size: 112 KB - Last synced at: 6 days ago - Pushed at: over 5 years ago - Stars: 2 - Forks: 0

btmartin721/phylip2eigenstrat

Python script to generate .snp and .ind Eigenstrat files from a PHYLIP infile

Language: Python - Size: 238 KB - Last synced at: over 1 year ago - Pushed at: about 7 years ago - Stars: 2 - Forks: 1

vierocka/Hybrid-bacterial-genomes

to adjust an old reference genome

Language: Shell - Size: 12.7 KB - Last synced at: 7 months ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

bradfordcondon/DiagLockPick

Quickly identify and generate primers for diagnostic loci

Language: Perl - Size: 37.1 KB - Last synced at: 6 days ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0

darcyabjones/snptree

A nextflow pipeline to run phylogenetic analyses using SNPs

Language: Groovy - Size: 108 KB - Last synced at: about 1 year ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 1

Grelot/aker--beetGenomeEnvironmentAssociation

Codes i wrote for the scientific paper "Predicting genotype environmental range from genome–environment associations"

Language: Python - Size: 11.4 MB - Last synced at: over 1 year ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

Frahiriart/Phylosnipping

Pipeline which make phylogeny with sequence of different sample

Language: Perl - Size: 26.8 MB - Last synced at: over 1 year ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0

ccdmb/snptree Fork of darcyabjones/snptree

A nextflow pipeline to run phylogenetic analyses using SNPs

Language: Nextflow - Size: 9.77 KB - Last synced at: about 2 years ago - Pushed at: about 6 years ago - Stars: 0 - Forks: 0

marlanbar/master-thesis

Predicción de patogenicidad en polimorfismos de un sólo nucleótido usando Aprendizaje Automático

Language: Jupyter Notebook - Size: 134 MB - Last synced at: almost 2 years ago - Pushed at: about 6 years ago - Stars: 0 - Forks: 0

hexhead/inbix

In silico research group's bioinformatics toolbox for network and machine learning analysis

Language: C++ - Size: 10.2 MB - Last synced at: about 2 years ago - Pushed at: over 6 years ago - Stars: 1 - Forks: 0

tpoorten/leaf_print

R scripts & functions for SNP data analysis of genotyping data from Affymetrix Axiom arrays

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mshakya/PhaME-old

Language: Perl - Size: 92.2 MB - Last synced at: about 2 months ago - Pushed at: over 7 years ago - Stars: 1 - Forks: 0

hcdenbakker/mcOutbryk

SNP calling pipeline using mccortex

Language: Python - Size: 52.7 KB - Last synced at: almost 2 years ago - Pushed at: almost 7 years ago - Stars: 1 - Forks: 1

hernanmd/SSNPs_WCF2018

Find shared SNPs between different microarray chips

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julianspaeth/snv-calling-workflow

SNV calling workflow

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Bohdan-Khomtchouk/Triglav

Variant calling format (vcf) file genomics pipeline for HPC and cloud

Language: C - Size: 30.3 KB - Last synced at: about 2 years ago - Pushed at: over 7 years ago - Stars: 2 - Forks: 0

hexhead/insilico-gene-annotation-app

In silico Lab Shiny App Demo Gene Annotation for a List of RefSNP IDs

Language: R - Size: 21.5 KB - Last synced at: about 2 years ago - Pushed at: almost 8 years ago - Stars: 0 - Forks: 0