Alternatives and similar repositories for TSSr

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

• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆38Updated 9 months ago
• Xinglab / espresso
  ☆64Updated 3 months ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• 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…
  ☆99Updated last month
• BioinfoUNIBA / REDItools2
  ☆60Updated 5 months ago
• josiegleeson / BamSlam
  Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files
  ☆15Updated last year
• deLaatLab / pipe4C
  4C-seq processing pipeline
  ☆26Updated 9 months ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆52Updated 3 years ago
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆63Updated 7 months ago
• christopher-vollmers / Mandalorion
  Pipeline to identify isoforms from full-length cDNA sequencing data
  ☆26Updated 3 months ago
• koszullab / hicstuff
  Simple library/pipeline to generate and handle Hi-C data.
  ☆39Updated last year
• dekkerlab / cworld-dekker
  perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)
  ☆67Updated 6 years ago
• BioinfoUNIBA / REDItools
  REDItools are python scripts to investigate RNA editing at genomic scale.
  ☆69Updated 5 months ago
• LabShengLi / nanome
  NANOME pipeline (Nanopore long-read sequencing consensus DNA methylation detection method and pipeline)
  ☆34Updated last month
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆61Updated 3 years ago
• LappalainenLab / lorals
  ☆38Updated 2 years ago
• mortazavilab / TranscriptClean
  Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome
  ☆70Updated last year
• bioinfo-biols / CIRI-long
  Circular RNA Identification for Nanopore Sequencing
  ☆22Updated last year
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆78Updated last year
• nloyfer / UXM_deconv
  ☆49Updated 3 years ago
• fiberseq / FIRE
  A Snakemake workflow for calling Fiber-seq Inferred Regulatory Elements (FIREs) on single molecules.
  ☆28Updated 2 months ago
• XiaoTaoWang / EagleC
  A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps
  ☆61Updated 4 months ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 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 …
  ☆50Updated last month
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆53Updated 3 months ago
• FAANG / analysis-TAGADA
  GENE-SWitCH project RNA-Seq analysis pipeline
  ☆29Updated 10 months ago
• olarerin / metaPlotR
  A Perl/R pipeline for plotting metagenes
  ☆37Updated 4 years ago
• 4dn-dcic / docker-4dn-hic
  Docker for 4DN Hi-C processing pipeline
  ☆61Updated last year
• DavidsonGroup / flexiplex
  The Flexible Demultiplexer
  ☆38Updated this week
• smithlabcode / ribotricer
  A tool for accurately detecting actively translating ORFs from Ribo-seq data
  ☆39Updated 11 months ago