Qiongqiong Wang's repositories
Analysis-of-species-transcriptome-WGCNA
WGCNA analysis was conducted to integrate different data from different articles of the same species to find the defense modules of each species
clusterProfiler
:bar_chart:statistical analysis and visualization of functional profiles for genes and gene clusters
de-wrapper-scripts
Perl scripts used to wrap application published in the DE
findGSE
findGSE is a tool for estimating size of (heterozygous diploid or homozygous) genomes by fitting k-mer frequencies iteratively with a skew normal distribution model.
GCE
GCE (genomic charactor estimator) is a bayes model based method to estimate the genome size ,genomic repeat content and the heterozygsis rate of the sequencing sample.
googlr
Googlr is a command line tool that lets you search Google from your terminal.
grn
Maize Gene regulatory network (MaizeGRN)
ILPBdb
The code for the once upon a time analysis of Immunity Landscape of Plant defense Stress
IsoSeq
IsoSeq3 - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
jcvi
Python library to facilitate genome assembly, annotation and comparative genomics
maize_tissue-specific_GRN
The repository source code for maize tissue-specific GRN project
NextDenovo
Fast and accurate de novo assembler for third generation sequencing (TGS) reads
OneKP-gene-family-evo
Gene family evolution analysis of OneKP capstone paper
OrthoFinder
Phylogenetic orthology inference for comparative genomics
rnaseq
public RNA-Seq datasets
rnaseq_tutorial
Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.
rnaseq_workflow
snakemake workflow for bulk RNA-seq workflow using STAR-edgeR
Snakemake-RNAseq-Workflow
Snakemake Pipeline for RNASeq Workflow
TO-GCN
Pipeline of time-ordered gene coexpression network (TO-GCN) construction from three-dimensional (gene expression, condition, and time) data
webSCST
A web tool for single-cell RNA-seq data and spatial transcriptome data integration
webservice-clients
A collection of Web Service Clients to consume EBI's tools via REST and SOAP APIs.