Shang-Hung Shih's repositories
ngs-main-wes
This is dockerize "somatic paired-WES(Normal-Tumor) pipeline" which is refer to GATK best practice.
autoOncotator
Python programs for automatically annotate vcf (variant call) file with Oncotator by selenium webdriver
GVCFiltering
Filtering vcf with population gvcf
vcf-filter
multi-anchors filtering and multi-threads implementation for vcf filtering
Docker-for-NGS
This is docker for NGS
indelConverter
tool for converting between dash and non-dash INDEL format using docker
igv.js
Embeddable genomic visualization component based on the Integrative Genomics Viewer
jupyter-notebook-via-ssh
connect to jupyter notebook running on server from local host
monitor2plot
A python program for monitoring CPU/MEM of your job, and save it as a plot.
neo4j-graph-renderer
A React.js component that allows you to render neo4j graphs
open-pedigree
A free and open-source pedigree tool by PhenoTips®
paraSNP
This is docker container based annotation tools for scoring variants call file.
pedigreejs
A web tool for building pedigrees, https://ccge-boadicea.github.io/pedigreejs/
SDS-input-generator
generate input file for Singleton Density Score (SDS) computing
tmux-config
Tmux configuration, that supercharges your tmux to build cozy and cool terminal environment
trie-prefix-tree
Create and modify trie prefix structures and extract word lists including prefixes, anagrams and sub-anagrams