JiangpingShu

Pinned Repositories

ALGA
This repository contains code of ALGA - short read de novo genome assembler.
Language:C++00
AnchorWave
sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism and whole-genome duplication variation
Language:C++0 0 00
GetOrganelle
Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)
Language:Python00
HomBlocks
HomBlocks: A multiple-alignment construction pipeline for organelle phylogenomics based on locally collinear block searching
Language:Python00
HTSanalyzeR2
HTSanalyzeR2: A R package for gene set enrichment and network analysis of various high-throughput data
Language:R00
ksrates
ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-ortholog Ks distributions.
Language:Python0 0 00
minimap2
A versatile pairwise aligner for genomic and spliced nucleotide sequences
Language:C0 0 00
pcoc
Convergent substitution detection tool based on the PCOC model
Language:Python00
phyx
phylogenetics tools for linux (and other mostly posix compliant) computers
Language:C++0 0 00
RIdeogram
Language:R00

JiangpingShu's Repositories

JiangpingShu/ALGA
This repository contains code of ALGA - short read de novo genome assembler.
Language:C++00
JiangpingShu/AnchorWave
sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism and whole-genome duplication variation
Language:C++0 0 00
JiangpingShu/GetOrganelle
Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)
Language:Python00
JiangpingShu/HomBlocks
HomBlocks: A multiple-alignment construction pipeline for organelle phylogenomics based on locally collinear block searching
Language:Python00
JiangpingShu/HTSanalyzeR2
HTSanalyzeR2: A R package for gene set enrichment and network analysis of various high-throughput data
Language:R00
JiangpingShu/ksrates
ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-ortholog Ks distributions.
Language:Python0 0 00
JiangpingShu/minimap2
A versatile pairwise aligner for genomic and spliced nucleotide sequences
Language:C0 0 00
JiangpingShu/pcoc
Convergent substitution detection tool based on the PCOC model
Language:Python00
JiangpingShu/phyx
phylogenetics tools for linux (and other mostly posix compliant) computers
Language:C++0 0 00
JiangpingShu/RIdeogram
Language:R00
JiangpingShu/seqmagick
An imagemagick-like frontend to Biopython SeqIO
Language:Python0 0
JiangpingShu/wgd
Python package and CLI for whole-genome duplication related analyses