Beast code in Giters

pk-zhu's starred repositories

ete

Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the NCBI taxonomy tree.

Language:PythonGPL-3.076700

BlastViewer

This package contains the BLAST Viewer Tool.

Language:JavaAGPL-3.01300

FA-nf

Functional annotation pipeline for proteins from non-model organisms implemented in Nextflow

Language:PerlGPL-3.01700

amoebae

Workflow for identifying and classifying homologous gene/protein sequences

Language:PythonNOASSERTION2000

CRISPRCasFinder

A Perl script allowing to identify CRISPR arrays and associated Cas proteins from DNA sequences

Language:PerlGPL-3.07700

showTree

showTree can visualize the phylogeny, protein sequences and protein domains of a gene family in one figure.

Language:Python3000

noveltree

NovelTree is a highly parallelized and computationally efficient phylogenomic workflow that infers gene families, gene family trees, species trees, and gene family evolutionary history.

Language:NextflowAGPL-3.01500

CAFE_fig

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

Language:Python5900

PlantTribes

PlantTribes is a collection of automated gene family analysis pipelines for comparative plant genomics

Language:PerlGPL-3.03000

pymsaploter

plot Multiple Sequence Alignment(MSA) of Clustal by python package

Language:HTML1100

GSSplayground

Lightweight single-html-file-based Genome Segments playground for Visualize genome features cluster(gene arrow map or other features), add synteny among genome fragments or add crosslink among features, add short(PE/MP)/long reads(pacbio or nanopore) mapping or snpindel in vcf(not support complex sv yet), support all CIGAR of sam alignment, directly modify almost all features in Chrome by click the feature

Language:HTML3100

RepeatOBserverV1

An R package to visualize chromosome scale repeat patterns and predict centromere locations.

Language:R1700

BGSP

Bamboo Genome Sequencing Project

Language:ShellMIT500

paper-reading

深度学习经典、新论文逐段精读

Apache-2.02488000

neutral-model-estimator

Simple pipeline to go from an alignment to a neutral model, using the PHAST toolkit

Language:PythonMIT1000

Recombination-detection-pipeline-for-large-gene-families

Automates detection of recombination events in large gene families (works with gene families with >1000 genes)

Language:Perl200

Genefamily_pipeline

A pipeline to identify gene family using mutiple tools and scripts.

Language:Python1100

circosplot

Some scripts and configurations to generate circosplot.

Language:Python100

docker-freenom-automatic-renewal

freedom免费域名自动续期

Language:DockerfileMIT5000

Amplicon2022

High throughput sequencing -- Amplicon sequencing, mainly include 16S, 18S and ITS for microbiome analysis

Language:ShellGPL-3.01500

arl

lists of most popular repositories for most favoured programming languages (according to StackOverflow)

Language:Python190500

covid-flu

This repository consists of scripts and workflows used for generating results, figures, and tables published in the article: Influenza vaccination reveals sex dimorphic imprints of prior mild COVID-19.

Language:RNOASSERTION600

Find-a-Machine-Learning-Job

找一份机器学习工作（算法工程师），需要提纲（算法能力）挈领（编程能力），充分准备。本人学习和在找工作期间受到了很多前辈们的帮助，目前已经找到心仪的工作，撰写此文献给那些在求职路上有梦有汗水的人们！2020秋招算法，难度剧增！没有选择，只能迎难而上。

6400

chatgpt---mirror-station-summary

汇总所有 chatgpt 镜像站，免费、付费、多模态、国内外大模型汇总等等持续更新中…… 个人能力有限，搜集到的不多，求大家多多贡献啊！众人拾柴火焰高！

Apache-2.01700

Awesome-One-Click-Deployment

🪄 One-click deployment of many github open source projects to facilitate fast experience 一键部署各种Github开源AI项目

110300

redmask

Genome assembly soft-masking using Red (REpeat Detector)

Language:PythonBSD-2-Clause1200