Alternatives and similar repositories for differentialabundance

Users that are interested in differentialabundance are comparing it to the libraries listed below

• nf-core / smrnaseq
  A small-RNA sequencing analysis pipeline
  ☆87Updated last month
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆115Updated 5 months ago
• signalbash / how_are_we_stranded_here
  Check strandedness of RNA-Seq fastq files
  ☆124Updated 2 years ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆114Updated 3 years ago
• zhxiaokang / RASflow
  RNA-Seq analysis workflow
  ☆104Updated 4 years ago
• GoekeLab / sg-nex-data
  Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
  ☆129Updated 2 weeks ago
• IARCbioinfo / BAM-tricks
  Tip and tricks for BAM files
  ☆85Updated 6 years ago
• mhammell-laboratory / TElocal
  A package for quantifying transposable elements at a locus level for RNAseq datasets.
  ☆28Updated 5 months ago
• nf-core / airrflow
  B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
  ☆64Updated last week
• ygidtu / trackplot
  trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…
  ☆93Updated last month
• tderrien / FEELnc
  FEELnc : FlExible Extraction of LncRNA
  ☆89Updated 10 months ago
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆71Updated last year
• nf-core / cutandrun
  Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream …
  ☆92Updated last month
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆58Updated 2 years ago
• gencorefacility / variant-calling-pipeline-gatk4
  Variant Calling Pipeline Using GATK4 and Nextflow
  ☆56Updated 2 years ago
• nf-core / oncoanalyser
  A comprehensive cancer DNA/RNA analysis and reporting pipeline
  ☆76Updated this week
• snakemake-workflows / rna-seq-kallisto-sleuth
  A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
  ☆68Updated 2 weeks ago
• iprada / Circle-Map
  A method for circular DNA detection based on probabilistic mapping of ultrashort reads
  ☆64Updated last year
• MonashBioinformaticsPlatform / RSeQC
  fork of RSeQC python RNAseq metrics suit of tools
  ☆48Updated 6 years ago
• LabTranslationalArchitectomics / riboWaltz
  optimization of ribosome P-site positioning in ribosome profiling data
  ☆52Updated 4 months ago
• hzi-bifo / RiboDetector
  Accurate and rapid RiboRNA sequences Detector based on deep learning
  ☆112Updated last year
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆102Updated last month
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆100Updated 8 months ago
• wyang17 / SQuIRE
  Software for Quantifying Interspersed Repeat Expression
  ☆60Updated 3 years ago
• nf-core / isoseq
  Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed …
  ☆44Updated last week
• nf-core / hlatyping
  Precision HLA typing from next-generation sequencing data
  ☆69Updated last week
• hoelzer-lab / rnaflow
  A simple RNA-Seq differential gene expression pipeline using Nextflow
  ☆101Updated last week
• ShiLab-Bioinformatics / subread
  The Subread software package is a tool kit for processing next-gen sequencing data. It includes Subread aligner, Subjunc exon-exon juncti…
  ☆45Updated last year
• BioinfoUNIBA / REDItools2
  ☆58Updated 3 years ago
• StevenWingett / FastQ-Screen
  Detecting contamination in NGS data and multi-species analysis
  ☆76Updated 8 months ago