Pinned Repositories
ab12phylo
AB12PHYLO: An integrated easy-to-use pipeline for ML phylogenetic tree inference
ABC-FDSS
ABC framework based on the distribution of segregationg sites between populations and Random Forest to perform model choice
admixture_cv_sum
[DEPRECATED] Summarizes the output of cross-validation values for multiple runs of admixture
AftrRAD
AftrRAD is a bioinformatic pipeline for analyzing GBS data such as those generated with RADseq.
AGAT
Another Gtf/Gff Analysis Toolkit
Al2PrunedTree
Prunes a given newick tree file to keep only taxa present in a given sequence alignment (FASTA format)
alvis
AMAS
Calculate summary statistics and manipulate multiple sequence alignments
AMP_alignment_process
A workflow and toolkit of perl scripts to manipulate multiple sequence alignments
testb
this is a test
jiangchb's Repositories
jiangchb/amplimap
amplicon/smMIP mapping and analysis pipeline
jiangchb/bsa
Bulked-Segregant Analysis using vcf file with or without parents
jiangchb/build
dockerfiles
jiangchb/cgview
CGView is a Java package for generating high-quality, zoomable maps of circular genomes.
jiangchb/cgview_comparison_tool
The CGView Comparison Tool (CCT) is a package for visually comparing bacterial, plasmid, chloroplast, and mitochondrial sequences.
jiangchb/deepredmt
Deepred-Mt is a novel method based on deep neural networks to predict C-to-U editing sites in angiosperm mitochondrial RNA.
jiangchb/dotPlotly
Generate an interactive dot plot from mummer or minimap alignments
jiangchb/fast-pptx
Quickly make a PowerPoint presentation from a directory of URLs, images, PDFs, CSV files, and code snippets.
jiangchb/file_converters
A collection of file format converters to prepare input for several popular phylogenetic and population genetics software packages.
jiangchb/findZX
jiangchb/GBKviz
Easy-to-use web application for visualization and comparison of genomes in Genbank file
jiangchb/Gene-Synteny-Analysis
Uses MCscan (python version) to create micro- and macro-synteny plots
jiangchb/Genome-annotation-pipeline
Genome annotation
jiangchb/genomeGTFtools
convert various features into a GFF-like file for use in genome browsers
jiangchb/GTseq-Pipeline
A series of perl and python scripts for generating genotypes from NGS fastq files from GTseq library sequencing.
jiangchb/mevomics
NeVOmics
jiangchb/mikado
Mikado is a lightweight Python3 pipeline whose purpose is to facilitate the identification of expressed loci from RNA-Seq data * and to select the best models in each locus.
jiangchb/MitoFlex
A mitogenome toolkit inspired by MitoZ, while being more effective, precise and flexible.
jiangchb/NGenomeSyn
Any Way to Show Multi genomic Synteny
jiangchb/omics_utils
util scripts for various omics data analysis
jiangchb/OrthoFinder
Phylogenetic orthology inference for comparative genomics
jiangchb/personal_tools
个人工具箱
jiangchb/phylotree.js
Interactive viewer of phylogenetic trees
jiangchb/physalia_adaptation_course
population genomics
jiangchb/plot_genome_align_fig
Plot genome alignment figure using progressiveMauve & genoPlotR
jiangchb/PsiCLASS
Simultaneous multi-sample transcript assembler for RNA-seq data
jiangchb/SparK
Publication quality NGS track plotting
jiangchb/SSR2Marker
An integrated pipeline for identification of SSR markers
jiangchb/SynNet-Pipeline
Workflow for Building Microsynteny Networks
jiangchb/VCF2Dis
VCF2Dis: A new simple and efficient software to calculate p-distance matrix based Variant Call Format