Alternatives and similar repositories for BRCA-LRseq-pipeline

Users that are interested in BRCA-LRseq-pipeline are comparing it to the libraries listed below

• mcgilldinglab / DOLPHIN

  View on GitHub
  DOLPHIN: Advances Single-cell RNA-seq Analysis Beyond Gene-Level by Integrating Exon-Level Quantification and Junction Reads with Deep Ne…
  ☆14Jul 16, 2025Updated 6 months ago
• yollct / spycone

  View on GitHub
  Splicing-aware time-course network enricher - exploratory analysis for transcriptomics and/or proteomics time series data
  ☆12Dec 11, 2025Updated 2 months ago
• Xinglab / espresso

  View on GitHub
  ☆64Sep 19, 2025Updated 4 months ago
• Xinglab / rMATS-long

  View on GitHub
  ☆34Nov 14, 2025Updated 3 months ago
• wenweixiong / MARVEL

  View on GitHub
  ☆54Aug 1, 2024Updated last year
• daisybio / NEASE

  View on GitHub
  A network-based approach for exon set enrichment
  ☆15Jul 16, 2025Updated 6 months ago
• SimoneTiberi / BANDITS

  View on GitHub
  BANDITS: Bayesian ANalysis of DIfferenTial Splicing
  ☆19Sep 29, 2025Updated 4 months ago
• TobiTekath / DTUrtle

  View on GitHub
  Perform differential transcript usage (DTU) analysis of bulk or single-cell RNA-seq data. See documentation at:
  ☆21Mar 30, 2024Updated last year
• jasonwong-lab / LocusMasterTE

  View on GitHub
  Integrating long read sequencing enhances short read-based locus-specific transposable element quantification
  ☆10May 12, 2025Updated 9 months ago
• Sika-Zheng-Lab / Shiba

  View on GitHub
  A versatile method for systematic identification of differential RNA splicing across platforms
  ☆15Jan 15, 2026Updated 3 weeks ago
• kvittingseerup / IsoformSwitchAnalyzeR

  View on GitHub
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆124Feb 5, 2026Updated last week
• nf-core / scnanoseq

  View on GitHub
  Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
  ☆51Nov 20, 2025Updated 2 months ago
• shizhuoxing / scISA-Tools

  View on GitHub
  single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single m…
  ☆26Jul 20, 2024Updated last year
• TransBioInfoLab / TNBC_analysis

  View on GitHub
  Code to reproduce TNBC analysis and figures
  ☆24Jun 13, 2022Updated 3 years ago
• Sanofi-Public / RiboNN

  View on GitHub
  RiboNN: predicting translation efficiencies from mRNA sequences
  ☆50Jan 12, 2026Updated last month
• broadinstitute / longbow

  View on GitHub
  Annotation and segmentation of MAS-seq data
  ☆20May 25, 2023Updated 2 years ago
• OlgaVT / Alternative-Splicing-Tools

  View on GitHub
  A list of alternative splicing analysis resources
  ☆47Mar 26, 2025Updated 10 months ago
• sbooeshaghi / single-cell-vocabulary

  View on GitHub
  ☆25Feb 2, 2024Updated 2 years ago
• XueyiDong / LongReadBenchmark

  View on GitHub
  Benchmarking long-read RNA-seq analysis tools
  ☆27Feb 17, 2025Updated 11 months ago
• liulab-dfci / lisa2

  View on GitHub
  ☆33Nov 9, 2022Updated 3 years ago
• gaolabtools / scNanoGPS

  View on GitHub
  Single cell Nanopore sequencing data for Genotype and Phenotype
  ☆57May 15, 2025Updated 8 months ago
• YeoLab / Expedition

  View on GitHub
  Expedition suite for computing, visualizing, and analyzing single-cell alternative splicing data
  ☆11Jun 29, 2017Updated 8 years ago
• OliveiraDS-hub / ChimeraTE

  View on GitHub
  A pipeline to detect chimeric transcripts derived from genes and transposable elements.
  ☆34Jul 27, 2025Updated 6 months ago
• sacanlab / immunotar

  View on GitHub
  ☆16Apr 18, 2025Updated 9 months ago
• GoekeLab / bambu-singlecell-spatial

  View on GitHub
  Transcript discovery and quantification for long read single cell and spatial transcriptomics data using Bambu
  ☆15Dec 8, 2025Updated 2 months ago
• ans4013 / ScisorWiz

  View on GitHub
  ScisorWiz: Differential Isoform Visualizer for Long-Read RNA Sequencing Data
  ☆20Apr 24, 2024Updated last year
• VCCRI / Sierra

  View on GitHub
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆54Jun 29, 2023Updated 2 years ago
• Shians / NanoMethViz

  View on GitHub
  ☆32Updated this week
• Xinglab / lr2rmats

  View on GitHub
  Long read to rMATS
  ☆32May 5, 2023Updated 2 years ago
• Runsheng / trackcluster

  View on GitHub
  An analysis pipeline for Nanopore direct-RNA sequencing
  ☆13Jul 24, 2025Updated 6 months ago
• NatPRoach / c_elegans_dRNAseq_analysis

  View on GitHub
  Scripts used in the analysis of C elegans dRNAseq data
  ☆14Apr 7, 2024Updated last year
• MuhammedHasan / gencode_utr_fix

  View on GitHub
  Gencode UTR fix
  ☆16Jan 11, 2023Updated 3 years ago
• landau-lab / ONT-sc-splice

  View on GitHub
  Tools for detecting alternative splicing events and genotype in single-cell gene expression data.
  ☆15Jan 16, 2024Updated 2 years ago
• Genentech / Isosceles

  View on GitHub
  The Isoforms from Single-Cell; Long-read Expression Suite
  ☆37Jan 14, 2025Updated last year
• Xinglab / SEASTAR

  View on GitHub
  SEASTAR - Systematic Evaluation of Alternative transcription STArt site in RNA
  ☆14Jan 21, 2018Updated 8 years ago
• WGLab / SCOTCH

  View on GitHub
  Single-Cell Omics for Transcriptome CHaracterization (SCOTCH): isoform-level characterization of gene expression through long-read single…
  ☆18Jan 8, 2026Updated last month
• mortazavilab / swan_vis

  View on GitHub
  A Python library to visualize and analyze long-read transcriptomes
  ☆66Jan 19, 2026Updated 3 weeks ago
• cbg-ethz / scIsoPrep

  View on GitHub
  Single-cell Iso Prep
  ☆17Oct 28, 2023Updated 2 years ago
• olapuentesantana / easier_manuscript

  View on GitHub
  ☆16Sep 21, 2021Updated 4 years ago