KennedyO-Bal's Stars
alexdobin/STAR
RNA-seq aligner
griffithlab/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.
marbl/canu
A single molecule sequence assembler for genomes large and small.
lme4/lme4
Mixed-effects models in R using S4 classes and methods with RcppEigen
marcelm/cutadapt
Cutadapt removes adapter sequences from sequencing reads
FelixKrueger/TrimGalore
A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data
s-andrews/FastQC
A quality control analysis tool for high throughput sequencing data
jtlandis/ggside
ggplot2 extension allowing for plotting various geometries as side panels using the ggplot2 API
pachterlab/sleuth
Differential analysis of RNA-Seq
lh3/miniasm
Ultrafast de novo assembly for long noisy reads (though having no consensus step)
alekseyzimin/masurca
theislab/diffxpy
Differential expression analysis for single-cell RNA-seq data.
BaselAbujamous/clust
Automatic and optimised consensus clustering of one or more heterogeneous datasets
RemiAllio/MitoFinder
MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data
costasilvati/consexpression
Tool for RNA-Seq analysis.
R-CoderDotCom/ggdogs
The geom you always wished for adding dogs to ggplot2
hamidghaedi/Enrichment-Analysis
From RNA-seq raw reads to enriched pathways by DEGs
jfnavarro/st_analysis
A toolset for analysis and visualisation of Spatial Transcriptomics datasets.
vborjesson/Gene_Expression
Analysis of RNA seq data to explore gene expression in different types of cancer
lyijin/topGO_pipeline
How to perform GO term enrichment analysis using topGO (Alexa et al., 2006).
sansomlab/cornet
Pipelines for correlation network analysis for gene expression data
Lufpa/TM3Seq-Pipeline
nat2bee/Foragers_vs_Nurses
Data and scripts from the manuscript: Gene expression and epigenetics reveal species-specific mechanisms acting upon common molecular pathways in the evolution of task division in bees
cheburechko/metaRE
R package for motif discovery via meta-analysis of microarrays and RNA-Seq
BenjaminATaylor/Taylor-et-al-2021-demo
Demo code for Taylor et al 2021 (https://www.nature.com/articles/s41467-021-21095-6)
jvanheld/stats_avec_RStudio_EBA
Cours “Statistiques avec R" pour l'Ecole de Bioinformatique Aviesan
kevinblighe/BiostarsMisc
warnerm/devnetwork
kapheimlab/mgen_genome_plasticity
This repo contains workflows, code, and scripts used in Kapheim et al. 2020. This includes Megalopta genalis genome assembly and annotation, as well as analysis of developmental plasticity related to social plasticity.
kumarsaurabh20/DChry2.1
Assembly scripts for Danaus chrysippus genome version 2.1