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agat

Another Gff Analysis Toolkit

alphafold

Open source code for AlphaFold.

awesome-zlibrary

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

deeplearning-500-questions

深度学习500问，以问答形式对常用的概率知识、线性代数、机器学习、深度学习、计算机视觉等热点问题进行阐述，以帮助自己及有需要的读者。 全书分为18个章节，50余万字。由于水平有限，书中不妥之处恳请广大读者批评指正。 未完待续............ 如有意合作，联系[email protected] 版权所有，违权必究 Tan 2018.06

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

pytorch-book

PyTorch tutorials and fun projects including neural talk, neural style, poem writing, anime generation (《深度学习框架PyTorch：入门与实战》)

redundans

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