☆68Mar 19, 2026Updated 6 months ago
Alternatives and similar repositories for espresso
Users that are interested in espresso are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆38Aug 6, 2026Updated last month
- ☆31Nov 28, 2024Updated last year
- Single-Cell Omics for Transcriptome CHaracterization (SCOTCH): isoform-level characterization of gene expression through long-read single…☆25Sep 3, 2026Updated 2 weeks ago
- cDNA read preprocessing☆96Jul 25, 2024Updated 2 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
- 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.
- A universal toolkit for upstream processing of long RNA reads☆239Updated this week
- Reference-guided transcript discovery and quantification for long read RNA-Seq data☆259Sep 2, 2026Updated 2 weeks ago
- Integrating long read sequencing enhances short read-based locus-specific transposable element quantification☆12May 12, 2025Updated last year
- ☆18Apr 18, 2024Updated 2 years ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆68Oct 11, 2024Updated last year
- SUPPA: Fast quantification of splicing and differential splicing☆307Nov 6, 2025Updated 10 months ago
- ☆11Sep 17, 2020Updated 6 years ago
- The analysis pipeline for FLEP-seq☆17Aug 18, 2023Updated 3 years ago
- Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files☆16Apr 4, 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.
- Transcript discovery and quantification for long read single cell and spatial transcriptomics data using Bambu☆26Sep 2, 2026Updated 2 weeks ago
- Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project☆164Updated this week
- Quantification of isoform usage and alternative polyadenylation (APA) from single-cell RNA-seq using a Nextflow-based pipeline.☆37Nov 6, 2025Updated 10 months ago
- ☆55Aug 1, 2024Updated 2 years ago
- ☆308Aug 10, 2026Updated last month
- The Isoforms from Single-Cell; Long-read Expression Suite☆42Jan 14, 2025Updated last year
- Long read to rMATS☆32May 5, 2023Updated 3 years ago
- Quantification of transposable element expression using RNA-seq☆98Feb 8, 2024Updated 2 years ago
- ☆21May 31, 2024Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- An R package for Splice-aware quantification of translation using Ribo-seq data☆21Dec 20, 2023Updated 2 years ago
- long read RNA-seq quantification☆124Aug 19, 2026Updated last month
- Systematic analyses of intronic polyadenylation from standard RNAseq data☆18Sep 10, 2024Updated 2 years ago
- TSSr is an R/Bioconductor package for comprehensive analyses of transcription start site (TSS) data☆11Aug 21, 2026Updated 3 weeks ago
- ☆116Aug 5, 2026Updated last month
- Codes for the Iso-Seq variant-calling paper☆11Apr 28, 2023Updated 3 years ago
- Improving gene isoform quantification with miniQuant☆43Aug 14, 2026Updated last month
- ENCODE long read RNA-seq pipeline☆54Apr 13, 2026Updated 5 months ago
- Pipeline for using IDR to produce a set of peaks given two replicate eCLIP peaks☆11Feb 16, 2022Updated 4 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- PSI-Sigma☆42Nov 10, 2023Updated 2 years ago
- polyApipe☆23Feb 10, 2025Updated last year
- Long-read Isoform Quantification and Analysis☆41Mar 25, 2025Updated last year
- Command-line tool for the visualization of splicing events across multiple samples☆143Jun 28, 2024Updated 2 years ago
- Full-Length Alternative Isoform analysis of RNA☆257Sep 8, 2026Updated last week
- A tidy interface for coverage analysis☆33Feb 18, 2020Updated 6 years ago
- A Python library to visualize and analyze long-read transcriptomes☆69Jan 19, 2026Updated 8 months ago