Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
☆56Sep 1, 2026Updated this week
Alternatives and similar repositories for scnanoseq
Users that are interested in scnanoseq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- The Flexible Demultiplexer☆46Aug 25, 2026Updated last week
- Single-Cell Omics for Transcriptome CHaracterization (SCOTCH): isoform-level characterization of gene expression through long-read single…☆25Aug 27, 2026Updated last week
- Transcript discovery and quantification for long read single cell and spatial transcriptomics data using Bambu☆24Updated this week
- End-to-end analysis of Oxford Nanopore single-cell sequencing, from barcode and UMI identification to gene and transcript expression☆119Jan 23, 2026Updated 7 months ago
- SingleCell Nanopore sequencing data analysis☆69May 30, 2025Updated last year
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- The R package "sarlacc" contains a pipeline to analyse nanopore sequencing data. It trims adapter sequences, retrieves optional UMI's, cl…☆15Feb 27, 2019Updated 7 years ago
- Nanopore demultiplexing, QC and alignment pipeline☆228Updated this week
- Workflow for somatic variant calling of long read data☆27Updated this week
- Full-length transcriptome splicing and mutation analysis☆94Mar 23, 2026Updated 5 months ago
- A framework for performing single-cell and bulk read full-length analysis of mutations and splicing.☆65Aug 13, 2026Updated 3 weeks ago
- single-nucleus nanopore reads processing pipeline☆16Aug 16, 2023Updated 3 years ago
- fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector☆27Jul 30, 2026Updated last month
- rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis☆68Updated this week
- Bulk (CP/GZ) and single-cell Iso-Seq in the developing human brain☆16May 30, 2024Updated 2 years ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files☆16Apr 4, 2024Updated 2 years ago
- long read RNA-seq quantification☆123Aug 19, 2026Updated 2 weeks ago
- A gene fusion caller for long-read transcriptome sequencing data.☆22Apr 29, 2024Updated 2 years ago
- Annotation and segmentation of MAS-seq data☆20May 25, 2023Updated 3 years ago
- reference-free transcriptome assembly for short and long reads☆112Mar 13, 2026Updated 5 months ago
- IsoTools is a python module for Long Read Transcriptome Sequencing (LRTS) analysis.☆28Oct 6, 2023Updated 2 years ago
- ☆116Aug 5, 2026Updated 3 weeks ago
- Quantification of isoform usage and alternative polyadenylation (APA) from single-cell RNA-seq using a Nextflow-based pipeline.☆37Nov 6, 2025Updated 9 months ago
- A universal toolkit for upstream processing of long RNA reads☆238Updated this week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- single-cell-Isoform-Sequencing-Analysis-Tools: New and powerful tools brings single-cell RNA sequencing to the Isoform level and single m…☆27Mar 3, 2026Updated 6 months ago
- single-cell analysis workflows for double phosphoramidite barcode and UMI Correction (scCOLOR-seq)☆13Jul 13, 2023Updated 3 years ago
- Pipeline to analyze long-read mRNA isoforms and ORF products sequenced in breast cancer using PacBio Single-Molecule technology.☆16May 17, 2022Updated 4 years ago
- Dedicated QC-only pipeline for sequencing data. The pipeline will run a (potentially large) set of QC tools and can output global and gro…☆28Updated this week
- ☆23Jul 15, 2026Updated last month
- POC Nextflow pipeline to run the Chai-1, SOTA model for biomolecular structure prediction☆11Jul 21, 2026Updated last month
- ClairS-TO - a deep-learning method for tumor-only somatic variant calling☆95Jul 29, 2026Updated last month
- Single cell Nanopore sequencing data for Genotype and Phenotype☆61May 15, 2025Updated last year
- Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research☆51Updated this week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- The Spatial Splicing-derived Neoantigen Identifier Pipeline (SSNIP) allows for the precise characterization of neoantigens derived from c…☆24Apr 10, 2025Updated last year
- B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework☆81Aug 28, 2026Updated last week
- ☆26Jul 15, 2026Updated last month
- The Isoforms from Single-Cell; Long-read Expression Suite☆41Jan 14, 2025Updated last year
- Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed …☆56Updated this week
- Tools for detecting alternative splicing events and genotype in single-cell gene expression data.☆16Jan 16, 2024Updated 2 years ago
- a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…☆17Jul 6, 2026Updated last month