Alternatives and similar repositories for IsoQuant

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

• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆223Updated this week
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆212Updated last month
• epi2me-labs / wf-transcriptomes
  ☆91Updated last week
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆149Updated 2 years ago
• GoekeLab / bambu
  Reference-guided transcript discovery and quantification for long read RNA-Seq data
  ☆208Updated this week
• haowenz / chromap
  Fast alignment and preprocessing of chromatin profiles
  ☆199Updated last week
• nf-core / hic
  Analysis of Chromosome Conformation Capture data (Hi-C)
  ☆99Updated 2 weeks ago
• GoekeLab / sg-nex-data
  Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
  ☆128Updated 4 months ago
• adamewing / methylartist
  Tools for plotting methylation data in various ways
  ☆147Updated this week
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆217Updated last week
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆201Updated 2 weeks ago
• linsalrob / fastq-pair
  Match up paired end fastq files quickly and efficiently.
  ☆149Updated 11 months ago
• novoalab / EpiNano
  Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)
  ☆114Updated last month
• deeptools / HiCExplorer
  HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
  ☆247Updated 5 months ago
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆108Updated 2 years ago
• mortazavilab / TALON
  Technology agnostic long read analysis pipeline for transcriptomes
  ☆143Updated last year
• GoekeLab / m6anet
  Detection of m6A from direct RNA-Seq data
  ☆121Updated last month
• epi2me-labs / wf-human-variation
  ☆124Updated this week
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆249Updated 3 months ago
• wjwei-handsome / wgatools
  Whole Genome Alignment Tools
  ☆191Updated this week
• dpryan79 / MethylDackel
  A (mostly) universal methylation extractor for BS-seq experiments.
  ☆170Updated 10 months ago
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆265Updated last year
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆128Updated 2 weeks ago
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆274Updated 10 months ago
• signalbash / how_are_we_stranded_here
  Check strandedness of RNA-Seq fastq files
  ☆123Updated 2 years ago
• kcleal / gw
  Genome browser and variant annotation
  ☆302Updated last month
• BrooksLabUCSC / flair
  Full-Length Alternative Isoform analysis of RNA
  ☆227Updated this week
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆213Updated 4 months ago
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆218Updated 3 months ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆162Updated last year