Alternatives and similar repositories for isoseq

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

• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago
• huangnengCSU / longcallR
  LongcallR is a SNP caller for single molecule long-read RNA-seq data
  ☆69Updated 2 months ago
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆58Updated 2 years ago
• cortes-ciriano-lab / savana
  Somatic structural variant caller for long-read data
  ☆83Updated this week
• vahidAK / NanoMethPhase
  Methylation Phasing for Nanopore Sequencing
  ☆48Updated 2 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• bioinfo-chru-strasbourg / vcf2circos
  python plotly Circos from VCF
  ☆40Updated last year
• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆46Updated 4 months ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆51Updated 2 years ago
• christopher-vollmers / Mandalorion
  Pipeline to identify isoforms from full-length cDNA sequencing data
  ☆25Updated last month
• nanoporetech / pipeline-pinfish-analysis
  Pipeline for annotating genomes using long read transcriptomics data with pinfish
  ☆28Updated 4 years ago
• mortazavilab / TranscriptClean
  Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome
  ☆70Updated last year
• Shians / NanoMethViz
  ☆31Updated last month
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆67Updated 6 months ago
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆48Updated 5 years ago
• nanoporetech / pinfish
  Tools to annotate genomes using long read transcriptomics data
  ☆45Updated 4 years ago
• fiberseq / FIRE
  A Snakemake workflow for calling Fiber-seq Inferred Regulatory Elements (FIREs) on single molecules.
  ☆28Updated this week
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• epi2me-labs / modbam2bed
  ☆50Updated last month
• lfaino / LoReAn
  Long Reads Annotation pipeline
  ☆72Updated 3 years ago
• DavidsonGroup / flexiplex
  The Flexible Demultiplexer
  ☆36Updated 2 months ago
• rrazaghi / modbamtools
  Set of tools to manipulate and visualize modified base bam files
  ☆57Updated 3 years ago
• FAANG / analysis-TAGADA
  GENE-SWitCH project RNA-Seq analysis pipeline
  ☆29Updated 8 months ago
• tanghaibao / bio-pipeline
  My collection of light bioinformatics analysis pipelines for specific tasks
  ☆76Updated last year
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆111Updated last month
• nanoporegenomics / napu_wf
  WDL workflows for variant calling and assembly using ONT
  ☆37Updated last month
• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆48Updated 3 years ago
• bergmanlab / drosophila-transposons
  Drosophila transposable element canonical sequences
  ☆29Updated 3 years ago
• shohei-kojima / MEGAnE
  MEGAnE
  ☆33Updated 2 years ago