yagoubali

1000Genomes_data_indexes

The index files for sequence and other data created for the 1000 Genomes project and the International Genome Sample Resource

ads1-notebooks

Copies of notebooks used in the practical sessions for Algorithms for DNA Sequencing

Africans-specific_ancestry-informative_SNPs

Africans specific ancestry informative SNPs

bioinfotools

Documenting usage and experience with bioinformatic tools

Genome-Analyses

Test scripts for H3Africa Cross-Consortium Genome Analyses

mathematical_modeling_of_biology_system

This project has been engaged in the use of mathematical modeling in the Gene Regulatory System (GRN). Different mathematical models that are inspired in gene regulatory network such as Central dogma, Hill function, Gillespie algorithm, Oscillating gene network, and Deterministic vs Stochastic modelings are discussed along with their codes that are

MCMC-Sample-Codes

Code for simple Markov Chain Monte Carlo simulations, for beginners

postGWAS_plot

scripts for plotting and evaluating GWAS summary statistics

Pymol_DasLab

Favorite RNA/protein viewing scripts from the Das lab

yagoubali/Africans-specific_ancestry-informative_SNPs

Africans specific ancestry informative SNPs

yagoubali/Biocontainers

Bioinformatics containers

yagoubali/CHM13

The complete sequence of a human genome

yagoubali/CU_projects

yagoubali/Genome-Analyses

Test scripts for H3Africa Cross-Consortium Genome Analyses

yagoubali/mathematical_modeling_of_biology_system

This project has been engaged in the use of mathematical modeling in the Gene Regulatory System (GRN). Different mathematical models that are inspired in gene regulatory network such as Central dogma, Hill function, Gillespie algorithm, Oscillating gene network, and Deterministic vs Stochastic modelings are discussed along with their codes that are

yagoubali/MCMC-Sample-Codes

Code for simple Markov Chain Monte Carlo simulations, for beginners

yagoubali/biomarkers

Genetics of blood and urine biomarkers in the UK Biobank

yagoubali/BookCode_Edition1

yagoubali/DSML-book-Lectures

yagoubali/DSML-book-Programs

Programs

yagoubali/fastq-dl

Download FASTQ files from SRA or ENA repositories.

yagoubali/gatk

Official code repository for GATK versions 4 and up

yagoubali/GenoTools

A suite of tools for processing genotype data. Includes calling genotypes from .idat to plink (ped), sample/case-control variant QC steps, ancestry estimation. UNDER DEVELOPMENT

yagoubali/hello-github-actions

yagoubali/js4ds

JavaScript for Data Science

yagoubali/LocusExplorer

An interactive graphical illustration of genetic associations and their biological context

yagoubali/logo

logos to be used in web applications

yagoubali/LUSTR

yagoubali/miniTR

yagoubali/modules

Environment Modules: provides dynamic modification of a user's environment

yagoubali/OpenBio

yagoubali/post-GWAS-pipeline

A comprehensive pipeline for post-GWAS analysis leveraging diverse types of omics data

yagoubali/RepeatCatalogs

yagoubali/sib-swiss-training-collection

Collection of bioinformatics training materials

yagoubali/SkeeterBuster

Aedes aegypti population dynamics simulation model.

yagoubali/SPGWAS2

Testing scripts for SPGWAS project II

yagoubali/Testing

yagoubali/ukbiobank

yagoubali/varainats_calling_annotations