Pinned Repositories
alignment-and-variant-calling-tutorial
basic walk-throughs for alignment and variant calling from NGS sequencing data
August-2019-consensus-accuracy-update
A short analysis of Oxford Nanopore consensus accuracy for bacterial genome assemblies
coursera-dl
Script for downloading Coursera.org videos and naming them.
DupGen_finder
A pipeline used to identify different modes of duplicated gene pairs
estimate_genome_size.pl
Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish
fastx_toolkit
FASTA/FASTQ pre-processing programs
hosts
:statue_of_liberty:最新可用的google hosts文件。镜像:
ivideo
一个可以观看国内主流视频平台所有视频的客户端(Mac、Windows、Linux) A client that can watch video of domestic(China) mainstream video platform
jcvi
Python utility libraries on genome assembly, annotation and comparative genomics
Jellyfish
A fast multi-threaded k-mer counter
tw7649116's Repositories
tw7649116/diploSHIC
tw7649116/MG-RAST
The MG-RAST Backend -- the API server
tw7649116/SNPRelate
R package: parallel computing toolset for relatedness and principal component analysis of SNP data (Development Version)
tw7649116/ggbeeswarm
Column scatter / beeswarm-style plots in ggplot2
tw7649116/In-depth-NGS-Data-Analysis-Course
Materials for 12-day course on analyzing RNA-Seq, ChIP-Seq and variant calling data.
tw7649116/ViewBS
ViewBS - a powerful toolkit for visualization of high-throughput bisulfite sequencing data
tw7649116/hapbin
Efficient program for calculating Extended Haplotype Homozygosity (EHH) and Integrated Haplotype Score (iHS)
tw7649116/LTR_retriever
LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also included in this package.
tw7649116/ngs-protocols
Scripts to run several protocols to process and analyze Next-Generation Sequencing data
tw7649116/ComplexHeatmap
Make Complex Heatmaps
tw7649116/ggVennDiagram
A 'ggplot2' implement of Venn Diagram
tw7649116/HiC-Pro
HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
tw7649116/r-color-palettes
Comprehensive list of color palettes available in r ❤️🧡💛💚💙💜
tw7649116/ppsPCP
A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline
tw7649116/DNA-methylation-analysis
DNA methylation analysis notes from Ming Tang
tw7649116/longshot
diploid SNV caller for error-prone reads
tw7649116/bioawk
BWK awk modified for biological data
tw7649116/BSMAPz
Updated and optimized fork of BSMAP
tw7649116/bioinfscripts
Bioinformatics scripts produced over the course of my work. Now maintained on GitLab.
tw7649116/TEanalysis
Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.
tw7649116/Parsing-RepeatMasker-Outputs
Few scripts facilitating the extraction of info from Repeat Masker .out files
tw7649116/flo
Same species annotation lift over pipeline.
tw7649116/bwa-mem2
The next version of bwa-mem (WIP; not recommended for production uses at the moment)
tw7649116/readfq
Fast multi-line FASTA/Q reader in several programming languages
tw7649116/rnaseq_tutorial
Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.
tw7649116/August-2019-consensus-accuracy-update
A short analysis of Oxford Nanopore consensus accuracy for bacterial genome assemblies
tw7649116/Basecalling-comparison
A comparison of different Oxford Nanopore basecallers
tw7649116/circlator
A tool to circularize genome assemblies
tw7649116/GenoToolBox
A box of genomics tools
tw7649116/ont_fast5_api
Oxford Nanopore Technologies fast5 API software