Alternatives and similar repositories for lncpipe:

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

• drostlab / myTAI
  Evolutionary Transcriptomics with R
  ☆42Updated last week
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆40Updated 2 years ago
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆48Updated 4 years ago
• stephenfloor / extract-transcript-regions
  For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…
  ☆35Updated last year
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 4 years ago
• bartongroup / RATS
  Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.
  ☆32Updated 2 years ago
• NBISweden / GUESSmyLT
  An efficient way to guess the library type of your RNA-Seq data.
  ☆30Updated 2 years ago
• khuang28jhu / bs3
  BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
  ☆27Updated 5 years ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆30Updated last year
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆59Updated 5 months ago
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆38Updated last month
• stephenturner / adapters
  Adapters for trimming
  ☆30Updated 6 years ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆38Updated 3 years ago
• NuttyLogic / BSBolt
  BiSulfite Bolt - A Bisulfite Sequencing Alignment and Processing Tool
  ☆21Updated last year
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 2 years ago
• Trinotate / Trinotate.github.io
  web documentation for Trinotate
  ☆48Updated 2 years ago
• molgenis / capice
  ☆23Updated 3 months ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆45Updated 2 years ago
• nanoporetech / pipeline-pinfish-analysis
  Pipeline for annotating genomes using long read transcriptomics data with pinfish
  ☆27Updated 4 years ago
• zd1 / telseq
  A software for calculating telomere length
  ☆68Updated 6 years ago
• cccnrc / plot-VCF
  visual analysis of your VCF files
  ☆32Updated 2 years ago
• jmw86069 / splicejam
  Sashimi plots for RNA-seq data using detected transcripts
  ☆27Updated this week
• chrisamiller / readDepth
  R package for inferring copy number from read depth
  ☆32Updated 2 years ago
• FAANG / analysis-TAGADA
  GENE-SWitCH project RNA-Seq analysis pipeline
  ☆26Updated last month
• NYU-BFX / lncRNA-screen
  lncRNA-screen
  ☆26Updated 7 years ago
• saketkc / rna-seq-snakemake
  Snakemake based pipeline for RNA-Seq analysis
  ☆31Updated 5 years ago
• zavolanlab / zarp
  The Zavolab Automated RNA-seq Pipeline
  ☆35Updated this week
• mritchielab / long_read_tools
  A catalogue of available long read sequencing data analysis tools
  ☆77Updated 2 weeks ago
• Oshlack / MINTIE
  Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.
  ☆35Updated 8 months ago
• crazyhottommy / pyflow-RNAseq
  RNAseq pipeline based on snakemake
  ☆25Updated 2 years ago