Alternatives and similar repositories for SalmonTE

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

• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆41Updated 3 years ago
• vastgroup / vast-tools
  A toolset for profiling alternative splicing events in RNA-Seq data.
  ☆83Updated 10 months ago
• kundajelab / phantompeakqualtools
  This package computes informative enrichment and quality measures for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data. It can also be used to…
  ☆60Updated 5 years ago
• francois-a / fastqtl
  Enhanced version of the FastQTL QTL mapper
  ☆71Updated 2 years ago
• biocore-ntnu / epic2
  Ultraperformant reimplementation of SICER
  ☆58Updated 2 weeks ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆35Updated 2 years ago
• vivekbhr / Subread_to_DEXSeq
  Scripts to import your FeatureCounts output into DEXSeq
  ☆34Updated 7 years ago
• gatk-workflows / gatk4-rnaseq-germline-snps-indels
  Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools
  ☆82Updated 4 years ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆99Updated last year
• williamritchie / IRFinder
  Detecting intron retention from RNA-Seq experiments
  ☆55Updated last year
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆117Updated 2 months ago
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆60Updated 4 years ago
• dariober / bioinformatics-cafe
  Unsorted scripts for bioinformatics
  ☆61Updated 4 years ago
• Henikoff / Cut-and-Run
  ☆32Updated 7 years ago
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆120Updated 2 weeks ago
• bowhan / piPipes
  piRNA pipeline collection developed in the Zamore Lab and ZLab in UMass Med School
  ☆61Updated 5 months ago
• olarerin / metaPlotR
  A Perl/R pipeline for plotting metagenes
  ☆37Updated 4 years ago
• BioinfoUNIBA / REDItools
  REDItools are python scripts to investigate RNA editing at genomic scale.
  ☆69Updated 5 months ago
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆62Updated 6 months ago
• marvin-jens / find_circ
  tools to find circRNAs in RNA-seq data
  ☆44Updated 8 years ago
• dekkerlab / cworld-dekker
  perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)
  ☆67Updated 6 years ago
• parklab / ShatterSeek
  ☆72Updated 2 years ago
• Xinglab / espresso
  ☆64Updated 3 months ago
• a2iEditing / RNAEditingIndexer
  A tool for the calculation of RNA-editing index for RNA seq data
  ☆45Updated last month
• hbctraining / Intro-to-rnaseq-hpc-salmon
  ☆50Updated 4 years ago
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆44Updated 2 weeks ago
• jianhong / trackViewer
  A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot
  ☆74Updated last month
• kundajelab / idr
  IDR
  ☆31Updated 2 years ago
• TrinityCTAT / ctat-mutations
  Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19
  ☆77Updated last year
• nloyfer / UXM_deconv
  ☆49Updated 2 years ago