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3d-dna

3D de novo assembly (3D DNA) pipeline

5hmuseq

Data analysis for sequencing 5-hydroxymethyluracil at single-base resolution (via chemical modification and mismatch formation)

ailearning

AiLearning: 机器学习 - MachineLearning - ML、深度学习 - DeepLearning - DL、自然语言处理 NLP

allhic

Genome scaffolding based on HiC data in heterozygous and high ploidy genomes

amplicon

Statistics and visualization for amplicon data

awesome-bioinformatics

A curated list of awesome Bioinformatics libraries and software.

bioinfo_course_bash

bioinfo_course_r

bioinformatics

braker

BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET and AUGUSTUS in novel eukaryotic genomes

bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

csvtk

A cross-platform, efficient and practical CSV/TSV toolkit in Golang

dadi_pipeline

An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting goodness of fit tests, and plotting.

dinoflagellate_annotation_workflow

Dinoflagellate Annotation Workflow

dvnp-gene-identify

Pipline for identify DVNP of dinoflagellates

easymicrobiome

Scripts and databases for amplicon and metagenome

estimate_genome_size.pl

Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish

flye-2019nature

De novo assembler for single molecule sequencing reads using repeat graphs

genome_assemble_falcon

FALCON: experimental PacBio diploid assembler -- Out-of-date -- Please use a binary release: https://github.com/PacificBiosciences/FALCON_unzip/wiki/Binaries

genomescope

Fast genome analysis from unassembled short reads

genomic_tools

Genomic related tools

geo

georgiscripts

geta

ggplotify

ggplot everything

ggtree

:christmas_tree:Visualization and annotation of phylogenetic trees

github-slideshow

A robot powered training repository :robot:

gozhuyinglong.github.io

haschseq

hic-assemble-juicer

A One-Click System for Analyzing Loop-Resolution Hi-C Experiments