16 skills found
rnnh / Bioinfo Notebook🔬 Bioinformatics Notebook. Scripts for bioinformatics pipelines, with quick start guides for programs and video demonstrations.
ShiLab-Bioinformatics / SubreadThe Subread software package is a tool kit for processing next-gen sequencing data. It includes Subread aligner, Subjunc exon-exon junction detector and featureCounts read summarization program.
vivekbhr / Subread To DEXSeqScripts to import your FeatureCounts output into DEXSeq
bpucker / RNA Seq Analysisscripts for RNA-Seq analysis
jrderuiter / Snakemake RnaseqRNA-seq workflow for Snakemake based on STAR and featureCounts.
junjunlab / GetGeneLengthExtract gene length based on featureCount calculation gene nonredundant exon length method.
AyehBlk / RAPTORRNA-seq Analysis Pipeline Testing and Optimization Resource - Intelligent pipeline selection and comprehensive benchmarking.
gih0004 / RNA Seq FeaturecountsThis repository contatins a pipeline for RNA-Seq data processing using featurecounts for gene count generation
yudalang3 / ResolveSA super-fast, memory-efficient tool for automatically determining RNA-Seq strand specificity. Designed for seamless integration into QC pipelines, it ensures accurate parameter configuration for downstream tools like featureCounts and Trinity.
hanielcedraz / BAQCOMQuality Control, Mapping and Reads Count for RNA-Seq Analysis
milospjanic / RnaSeqFPrornaSeqFPro (beta) is a script for full processing of RNASeq data starting from fastq files. It performs fastqc quality control, mapping to the human genome hg19 using STAR second pass, counting with featurecounts using GENCODE gtf annotation, creates master table, performs differential analysis using DESeq2, generates graphs in gglot2.
barbavegeta / RNA Seq Nextflow Pipeline With DockerMinimal end-to-end RNA-seq pipeline: FASTQ -> FastQC -> cutadapt -> STAR -> sorted BAM -> featureCounts -> MultiQC → DESeq2
AveraSD / Nextflow Rnastarnextflow pipeline for transcriptome quantificaton using STAR and featurecounts
erwinQiao / Rna Seq Hisat2 FeatureCountsUsing snakemake to run RNA-Seq
refmyoussef-source / Rnaseq Klebsiella PipelineA complete bioinformatics pipeline (FastQC, fastp, HISAT2, featureCounts, DESeq2) for RNA-Seq DGE analysis of Klebsiella pneumoniae (WT vs. ΔcpxR).
uhh-lt / LefexA tool for extraction of lexical features from text based on UIMA and MapReduce
