qiao-xin

Xin Qiao's repositories

DupGen_finder

A pipeline used to identify different modes of duplicated gene pairs

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Scripts_for_GB

The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".

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OrthoFinder

Accurate inference of orthologous gene groups made easy. "OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthologous gene group inference accuracy"

Language:PythonGPL-3.0500

sleuth

Differential analysis of RNA-Seq

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LTR_FINDER_parallel

A parallel wrapper for LTR_FINDER

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DeepLearning-500-questions

Language:TeXGPL-3.0200

jcvi

Python utility libraries on genome assembly, annotation and comparative genomics

Language:PythonBSD-2-Clause2 20

kallisto

Near-optimal RNA-Seq quantification

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MCScanX

MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!

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Scripts

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vcf2phylip

Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

Language:PythonGPL-3.02 10

fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

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free-photos

Places to find CC0 photos and the like

1 20

github-bioinformatics

Code for Russell et al. "A large-scale analysis of bioinformatics code on GitHub"

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IDGRM

IDGRM-Inferring Duplicated Gene Retention Mechanism

1 20

maize-fractionation

Repository hosts the code used in the manuscript titled "Limited role of differential fractionation in genome content variation and function in maize (Zea mays L.) inbred lines."

Language:Perl1 20