single-nucleus nanopore reads processing pipeline
☆16Aug 16, 2023Updated 2 years ago
Alternatives and similar repositories for snuupy
Users that are interested in snuupy are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…☆79Mar 21, 2023Updated 3 years ago
- Third-generation fusion gene detection☆13Jul 25, 2023Updated 3 years ago
- Workflow for Nanopore Sequencing of 10x single cell libraries☆19Mar 20, 2025Updated last year
- ☆24Jul 30, 2025Updated last year
- ☆115Jan 23, 2026Updated 6 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- ☆14Feb 17, 2022Updated 4 years ago
- Deep learning model used to detect RNA m6a with read level based on the Nanopore direct RNA data.☆22Oct 12, 2022Updated 3 years ago
- 10X single cell Nanopore reads simulation workflow. Complete documentation avialable at: https://GenomiqueENS.github.io/AsaruSim/☆13Jul 27, 2025Updated last year
- Snakemake pipeline for plate scATAC-seq processing☆26Dec 7, 2023Updated 2 years ago
- Tools for detecting alternative splicing events and genotype in single-cell gene expression data.☆15Jan 16, 2024Updated 2 years ago
- Long-read Isoform Quantification and Analysis☆40Mar 25, 2025Updated last year
- Single cell RNA-seq preprocessing tool for gene-by-cell matrices of UMI counts. It is recommended to use the raw spliced and unpliced cou…☆20Sep 29, 2025Updated 10 months ago
- 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 5 months ago
- Material for lectures and exercises of the SIB course "Advanced topics in single-cell transcriptomics" (May 2020)☆18May 29, 2020Updated 6 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- chimeraviz is an R package that automates the creation of chimeric RNA visualizations.☆39Updated this week
- Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics☆56Jul 28, 2026Updated 2 weeks ago
- SingleCell Nanopore sequencing data analysis☆69May 30, 2025Updated last year
- Tool for demultiplexing Nanopore barcode sequence data☆25Mar 9, 2026Updated 5 months ago
- Transcript discovery and quantification for long read single cell and spatial transcriptomics data using Bambu☆23Aug 5, 2026Updated last week
- A framework for performing single-cell and bulk read full-length analysis of mutations and splicing.☆63Aug 6, 2026Updated last week
- This repository contains the code for reproducing all the results and figures from the preprint "Isoform specificity in the mouse primary…☆16Jul 16, 2021Updated 5 years ago
- ☆11Sep 17, 2020Updated 5 years ago
- A framework to annotate SVs with previous known SVs (vcf file) and or with genomic features (gff and or bed files)☆13Mar 12, 2018Updated 8 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- single-cell analysis workflows for double phosphoramidite barcode and UMI Correction (scCOLOR-seq)☆13Jul 13, 2023Updated 3 years ago
- Full-length transcriptome splicing and mutation analysis☆93Mar 23, 2026Updated 4 months ago
- Benchmarking long-read RNA-seq analysis tools☆28Feb 17, 2025Updated last year
- Gene-based test of allele-specific expression without requiring haplotype information☆16Mar 20, 2018Updated 8 years ago
- 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
- The analysis pipeline for FLEP-seq☆17Aug 18, 2023Updated 2 years ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆68Oct 11, 2024Updated last year
- A Survey of Canteen Desserts at Institut Pasteur☆12Nov 18, 2022Updated 3 years ago
- ScisorWiz: Differential Isoform Visualizer for Long-Read RNA Sequencing Data☆20Apr 24, 2024Updated 2 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Single-Cell Omics for Transcriptome CHaracterization (SCOTCH): isoform-level characterization of gene expression through long-read single…☆25Aug 2, 2026Updated last week
- JAFFA is a multi-step pipeline that takes either raw RNA-Seq reads, or pre-assembled transcripts, then searches for gene fusions☆116Updated this week
- Variant Calling Pipeline in Cromwell/WDL☆22Feb 22, 2020Updated 6 years ago
- Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by a…☆205May 4, 2023Updated 3 years ago
- Quantification of isoform usage and alternative polyadenylation (APA) from single-cell RNA-seq using a Nextflow-based pipeline.☆36Nov 6, 2025Updated 9 months ago
- TF analysis from epigenetic and Hi-C data☆19Apr 1, 2025Updated last year
- ☆10Dec 14, 2016Updated 9 years ago