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agat

Another Gff Analysis Toolkit

alphafold

Open source code for AlphaFold.

beluga.jl

Statistical analysis of gene family evolution using phylogenetic birth-death processes and WGD inference using rjMCMC

blastxmlparser

Fast big data XML parser and library, written in Ruby

cafe_fig

A tool to extract and visualize the results of CAFE (Computational Analysis of gene Family Evolution)

chromer

package for interacting with the chromosome counts database (CCDB) at http://ccdb.tau.ac.il

dimensionality_reduction_alo_codes

PCA、LDA、MDS、LLE、TSNE等降维算法的python实现

four-fold_degenerate_bedmaker

A python script to identify four-fold degenerate sites from a CDS fasta

funannotate

Eukaryotic Genome Annotation Pipeline

gff3toolkit

Python programs for processing GFF3 files

hifiasm

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

isoseq

IsoSeq3 - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads

jcvi

Python utility libraries on genome assembly, annotation and comparative genomics

juicebox_scripts

A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats

ksplotting

ldplot

metaboanalystr

R package for MetaboAnalyst

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

mite-tracker

MITE Tracker: An accurate approach to identify miniature inverted-repeat transposable elements in large genomes

mitefinder

nextdenovo

Fast and accurate de novo assembler for third generation sequencing (TGS) reads

nextpolish

Fast and accurately polish the genome generated by noisy long reads.

opus_fold

OPUS-Fold: An Open-Source Protein Folding Framework Based on Torsion-Angle Sampling

orthofinder

Phylogenetic orthology inference for comparative genomics

phased-assembly-check-by-baozg

python-100-days

Python - 100天从新手到大师

redundans

Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.

swarm

A robust and fast clustering method for amplicon-based studies

updater

update your R version in a breeze ( on OSX) √

wgcna_stepbustep