Sh1ne111

Shuai Chen's starred repositories

ThreadPool

A simple C++11 Thread Pool implementation

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Advanced and Fast Data Transformation in R

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LinuxC

听说C与Linux更搭配哦～内容包括：C基础 C++面向对象编程基础数据结构 linux系统编程以及一些操作系统的相关知识

Language:CGPL-3.0484 4 3

pyseer

SEER, reimplemented in python 🐍🔮

Language:PythonApache-2.0106 10 217

wgatools

Whole Genome Alignment Tools

Language:RustMIT94 1 7

ntSynt

Detecting multi-genome synteny using minimizer graph mapping

Language:PythonGPL-3.063 6 5

bio_tools

Useful bioinformatic scripts

Language:ShellMPL-2.048 50

NovoGraph

NovoGraph: building whole genome graphs from long-read-based de novo assemblies

Language:PerlMIT44 15 25

container-collection-for-c

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appliedgenomics2023

Materials for EN.601.449/649 Computational Genomics: Applied Comparative Genomics

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CropGBM

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gwas_gemma

Perform GWAS with gemma in a simple pipeline

Language:ShellMIT23 2 2

Genomic-Selection

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SWIGG

A pipeline for making SWIft Genomes in a Graph (SWIGG) using k-mers

Language:PythonMIT20 12 4

panqc

A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses

Language:PythonMIT14 20

KaMRaT

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kmerDecoder

Extract kmers, skipmers, minimizers.

Language:C++10 5 32

CDKAM

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locusplotr

Create Regional Association Plots

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os-minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

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eQTL_XGBoost

600

prophex

ProPhex – an exact k-mer index using Burrows-Wheeler Transform

Language:CMIT6 5 18

DMAP

Davids Map Alignment Program for comparing genetic and physical maps

Language:Perl5 30

g3tools

An R packages for Genomics, quantGen, and popGen studies, especially for crop species.

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Cropgbm-genomebiology

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power_FDR

Power and false discovery rate

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Genomic-Prediction

R-Scripts for Genomic Prediction

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GenomicPrediction

rrBLUP genomic prediction and K fold cross-validation

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locusplotter

Visualization tool to plot composites at genomic loci, reference points & regions of interest

Language:JavaScriptMIT1 20

naive_seq_align

A simple sequence alignment

Language:C100