Alternatives and similar repositories for IsoQuant

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

• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆219Updated 2 months ago
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆236Updated last week
• GoekeLab / bambu
  Reference-guided transcript discovery and quantification for long read RNA-Seq data
  ☆217Updated 3 weeks ago
• deeptools / HiCExplorer
  HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
  ☆256Updated last month
• epi2me-labs / wf-transcriptomes
  ☆103Updated last month
• BrooksLabUCSC / flair
  Full-Length Alternative Isoform analysis of RNA
  ☆234Updated 2 weeks ago
• novoalab / EpiNano
  Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)
  ☆117Updated 2 months ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆241Updated 2 months ago
• haowenz / chromap
  Fast alignment and preprocessing of chromatin profiles
  ☆203Updated 2 weeks ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆158Updated 2 years ago
• epi2me-labs / wf-human-variation
  ☆134Updated last month
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆108Updated 2 years ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆275Updated 7 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆193Updated this week
• mortazavilab / TALON
  Technology agnostic long read analysis pipeline for transcriptomes
  ☆149Updated last year
• CompEpigen / figeno
  Tool for plotting sequencing data along genomic coordinates.
  ☆309Updated 2 months ago
• GoekeLab / sg-nex-data
  Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
  ☆135Updated 3 weeks ago
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆211Updated 2 months ago
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆280Updated last year
• adamewing / methylartist
  Tools for plotting methylation data in various ways
  ☆160Updated last month
• GoekeLab / m6anet
  Detection of m6A from direct RNA-Seq data
  ☆129Updated 3 months ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆170Updated last year
• nf-core / methylseq
  Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
  ☆172Updated last week
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆142Updated last month
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆275Updated last year
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆262Updated 7 months ago
• open2c / cooltools
  The tools for your .cool's
  ☆154Updated 2 months ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆262Updated this week
• nanoporetech / modkit
  A bioinformatics tool for working with modified bases
  ☆212Updated last month
• nf-core / hic
  Analysis of Chromosome Conformation Capture data (Hi-C)
  ☆101Updated 2 months ago