Alternatives and similar repositories for IsoQuant

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

• GoekeLab / bambu
  Reference-guided transcript discovery and quantification for long read RNA-Seq data
  ☆212Updated 2 weeks ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆215Updated last week
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆232Updated this week
• epi2me-labs / wf-transcriptomes
  ☆98Updated 3 weeks ago
• mortazavilab / TALON
  Technology agnostic long read analysis pipeline for transcriptomes
  ☆144Updated last year
• novoalab / EpiNano
  Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)
  ☆115Updated last week
• GoekeLab / sg-nex-data
  Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
  ☆129Updated 2 weeks ago
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆203Updated last week
• epi2me-labs / wf-human-variation
  ☆130Updated last week
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆153Updated 2 years ago
• deeptools / HiCExplorer
  HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
  ☆251Updated 3 weeks ago
• nf-core / hic
  Analysis of Chromosome Conformation Capture data (Hi-C)
  ☆99Updated last week
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆108Updated 2 years ago
• adamewing / methylartist
  Tools for plotting methylation data in various ways
  ☆156Updated this week
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆234Updated 2 months ago
• BrooksLabUCSC / flair
  Full-Length Alternative Isoform analysis of RNA
  ☆230Updated this week
• haowenz / chromap
  Fast alignment and preprocessing of chromatin profiles
  ☆203Updated 3 weeks ago
• GoekeLab / m6anet
  Detection of m6A from direct RNA-Seq data
  ☆124Updated last month
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆255Updated 5 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆189Updated this week
• CompEpigen / figeno
  Tool for plotting sequencing data along genomic coordinates.
  ☆296Updated 2 weeks ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆269Updated 5 months ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆261Updated last week
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆219Updated 5 months ago
• abyzovlab / CNVpytor
  a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads
  ☆202Updated 3 months ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆141Updated 3 years ago
• dpryan79 / MethylDackel
  A (mostly) universal methylation extractor for BS-seq experiments.
  ☆173Updated last year
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆217Updated 6 months ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆170Updated last year
• nanoporetech / modkit
  A bioinformatics tool for working with modified bases
  ☆202Updated 3 weeks ago