lizhizhong1992 Goto Github PK

2019-06-11_gbs_ee

Resource for Genotype-by-Sequencing in Ecology and Evolution workshop

abc_inferences

admixturepipeline

A pipeline that accepts a VCF file to run through Admixture

alitv

Visualize whole genome alignments as linear maps

assembly

Pipelines and scripts related to genome assembly, annotation, and analysis

astrid

Fast, accurate species tree estimation.

beautiful-visualization-with-r

《R语言数据可视化之美》配套代码

bin

scripts

bio-pipeline

My collection of light bioinformatics analysis pipelines for specific tasks

biocode

Bioinformatics code libraries and scripts

bioinformatic_scripts

common bioinformatic scripts

bioinformatics

tools for biolinux

blobtools

Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets

brownlab-workflow-mcmctree

Tutorial for using MCMCTree as implemented by Brown Lab at SIUC. For divergence time estimation on UCE datasets, for dendrobatid frogs.

buscofilter

A tool to filter BUSCO output into single-copy gene folders for phylogenomics

cafexp

Version 5 of the CAFE phylogenetics software

cgat-apps

cgat-apps repository

circos-pipeline

circos pipeline

coilia_nasus_parallel_evolution

Scripts used in parallel evolution analysis of Coilia nasus

consel

CONSEL: for assessing the confidence of phylogenetic tree selection

convenient_scripts

Bits and Bobs of Useful Scripts

course-linux-command-line-bash-scripting-metacentrum

Don’t be afraid of command line! It is friendly and powerful tool allowing to process large data and automate tasks. Practically identical is command line also in Apple osX, BSD and another UNIX-based systems, not only in Linux. The course is designed for total beginners as well as intermediate advanced students. The only requirement is an interest (or need) to work in command line, typically on Linux computing server.

dadi_pipeline

An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting goodness of fit tests, and plotting.

ddocent

a bash pipeline for RAD sequencing

demographicinference

Scripts to compare models of divergence using diffusion approximation (dadi)

demographytutorial

Demography Workshop focused on the SFS and Fastsimcoal2

denovotargetcapturepopgen

Bioinformatics pipelines for processing transciptome-based exon capture data in population genomic analyses

discosnp

DiscoSnp is designed for discovering all kinds of SNPs (not only isolated ones), as well as insertions and deletions, from raw set(s) of reads.

dsuite

Fast calculation of the ABBA-BABA statistics across many populations/species

easyparallel