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.
  ☆40Updated 3 years ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆114Updated 3 years ago
• vastgroup / vast-tools
  A toolset for profiling alternative splicing events in RNA-Seq data.
  ☆82Updated 7 months ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆99Updated 9 months ago
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆59Updated 4 years 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…
  ☆59Updated 5 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
  ☆79Updated 3 years ago
• jianhong / trackViewer
  A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot
  ☆73Updated 2 months ago
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆74Updated last year
• lh3 / hickit
  TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
  ☆111Updated 4 years ago
• a2iEditing / RNAEditingIndexer
  A tool for the calculation of RNA-editing index for RNA seq data
  ☆43Updated last year
• khuang28jhu / bs3
  BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
  ☆27Updated 6 years ago
• BioinfoUNIBA / REDItools
  REDItools are python scripts to investigate RNA editing at genomic scale.
  ☆68Updated last month
• LuyiTian / FLAMES
  Full-length transcriptome splicing and mutation analysis
  ☆84Updated last year
• olarerin / metaPlotR
  A Perl/R pipeline for plotting metagenes
  ☆37Updated 3 years ago
• marvin-jens / find_circ
  tools to find circRNAs in RNA-seq data
  ☆44Updated 7 years ago
• dariober / bioinformatics-cafe
  Unsorted scripts for bioinformatics
  ☆61Updated 4 years ago
• ivanek / Gviz
  This is the Gviz development repository. Gviz plots data and annotation information along genomic coordinates.
  ☆86Updated 7 months ago
• smithlabcode / methpipe
  A pipeline for analyzing DNA methylation data from bisulfite sequencing.
  ☆70Updated 2 years ago
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆117Updated 6 months ago
• parklab / ShatterSeek
  ☆71Updated 2 years ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆31Updated 2 years ago
• biocore-ntnu / epic2
  Ultraperformant reimplementation of SICER
  ☆57Updated 3 years ago
• Henikoff / Cut-and-Run
  ☆30Updated 7 years ago
• vivekbhr / Subread_to_DEXSeq
  Scripts to import your FeatureCounts output into DEXSeq
  ☆34Updated 6 years ago
• francois-a / fastqtl
  Enhanced version of the FastQTL QTL mapper
  ☆68Updated 2 years ago
• ucagenomix / sicelore
  Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…
  ☆75Updated 2 years ago
• LabTranslationalArchitectomics / riboWaltz
  optimization of ribosome P-site positioning in ribosome profiling data
  ☆52Updated 6 months ago
• wyang17 / SQuIRE
  Software for Quantifying Interspersed Repeat Expression
  ☆61Updated 3 years ago
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆43Updated last week