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assembly_stats

calculate the assembly statistics

associationmappingscripts

Association mapping scripts

awesome-python

A curated list of awesome Python frameworks, libraries, software and resources

bcftools

This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib

bioinformatics-svm

bioinformatics_tools_guys

collection of some bioinformatics and expert of this area

bopsexchr

Analyses of sex chromosome evolution in songbirds

breakdancer

SV detection from paired end reads mapping

briggsae_reference_genome_ms

cheatsheets

RStudio Cheat Sheets

clusterprofiler

:bar_chart: statistical analysis and visualization of functional profiles for genes and gene clusters

data-cleaning-practical-examples

Data Cleaning In Python and Julia with Practical Examples

data-science--cheat-sheet

Cheat Sheets

exercise

exercise repo for git lecture

faststructure

A variational framework for inferring population structure from SNP genotype data.

fibonacci

Example R package generating Fibonacci Sequences And Plots

generic_genomics

small scripts, functions or bits of code for parsing genomic data

genomegtftools

convert various features into a GFF-like file for use in genome browsers

govs

Genome optimization via virtual simulation

gwas-lecture

Lectures on Genome Wide Association Studies (GWAS) using Python, Limix and Jupyter Noteboos

gwaspipeline

A basic GWAS analyses workflow. Worked examples provided in rendered markdown.

h3agwas

GWAS Pipeline for H3Africa

hedgehog_rad

Hedgehog genomic project using RAD paired-end reads

ideogram

Chromosome visualization for the web

in-depth-ngs-data-analysis-course

Materials for 12-day course on analyzing RNA-Seq, ChIP-Seq and variant calling data.

intro-to-regex

https://fnyasimi.github.io/intro-to-regex/

janitor

simple tools for data cleaning in R

ldblockshow

LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files

leverage-ancestry

Scripts for admixture analysis, admixture mapping, and polygenic risk scores.

lmm-lasso

An implementation of the Lasso model for association mapping and phenotype prediction which corrects for population strucure (Rakitsch et al., Bioinformatics 2013): http://goo.gl/FRmXwI