A collection of tools to process single-cell omics datasets.
☆51May 29, 2025Updated 10 months ago
Alternatives and similar repositories for PISA
Users that are interested in PISA are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- An open source and flexible pipeline to analyze DNBelab C Series single-cell RNA datasets.☆41Nov 24, 2022Updated 3 years ago
- A pipeline for scRNA analysis under HPC☆11Jul 15, 2024Updated last year
- The official pipeline for flexible and high-performance analysis of DNBelab C Serie single-cell data.☆145Jan 19, 2026Updated 2 months ago
- barcode demultiplexing☆22Jun 4, 2019Updated 6 years ago
- A scaffold assembling pipeline for stLFR reads.☆14Mar 15, 2021Updated 5 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.
- SPATA Package for spatial gene expression analysis☆21May 6, 2022Updated 3 years ago
- A computation framework designed to detect differential junctions usage between two groups at single cell level☆13Feb 1, 2021Updated 5 years ago
- Deep fusion of spatial transcriptomics and histology images for interpretable high-definition embedding mapping☆18Apr 12, 2026Updated last week
- URMAP ultra-fast read mapper☆38Jun 15, 2020Updated 5 years ago
- RabbitMash: an efficient highly optimized implementation of Mash.☆20Oct 28, 2023Updated 2 years ago
- iterative clustering pipeline of big single cell datasets.☆38Sep 5, 2025Updated 7 months ago
- NOTE: This package has been renamed to sparrow and will be submitted to Bioconductor 3.14. Please use that package instead. This is kept …☆23Nov 16, 2020Updated 5 years ago
- This script use to analyze the immune repertoire sequenced by high throughtput sequencing☆27Dec 16, 2021Updated 4 years ago
- Microbiome profiling☆15Nov 20, 2025Updated 4 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Spatially constrained color profiling for visualizing single-cell resolution spatial data☆25Sep 23, 2024Updated last year
- R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets☆249Apr 1, 2026Updated 2 weeks ago
- A public clone of the HypoMap Figure & analysis repository.☆11Sep 26, 2022Updated 3 years ago
- A k-mer frequency statistics software☆15Nov 19, 2021Updated 4 years ago
- Helper scripts for biological data processing from Sentieon☆65Apr 3, 2026Updated 2 weeks ago
- ☆21Dec 23, 2024Updated last year
- BAMixChecker: A fast and efficient tool for sample matching checkup☆16Jun 12, 2022Updated 3 years ago
- SMILE: Mutual Information Learning for Integration of Single Cell Omics Data☆11Mar 28, 2023Updated 3 years ago
- A toolkit of spatial transcriptomic analysis.☆275Apr 7, 2026Updated last week
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- a lightweight bam file depth statistical tool☆161Sep 13, 2024Updated last year
- Inferring CNV from Single-Cell RNA-Seq☆662Nov 14, 2025Updated 5 months ago
- A tool to infer TF regulators for gene modules.☆10May 11, 2021Updated 4 years ago
- A C++ drop-in replacement of FastQC to assess the quality of sequence read data☆126Apr 7, 2026Updated last week
- FxTools: a comprehensive toolkit for FASTA and FASTQ file manipulation☆31Feb 16, 2022Updated 4 years ago
- ☆19Apr 14, 2024Updated 2 years ago
- Comparison, benchmarking & QC of epigenetic datasets☆17Dec 2, 2025Updated 4 months ago
- R package for detecting doublets in single-cell RNA sequencing data☆540Mar 21, 2025Updated last year
- iFISH Probe Design: a Python3 package to build iFISH probes.☆12Mar 11, 2022Updated 4 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Predicting T Cell Receptor Specificity with Deep Learning☆10Jul 17, 2019Updated 6 years ago
- Dynamic programming for aa-to-nt alignment with affine gap, splicing and frameshift☆19Sep 30, 2024Updated last year
- ☆21Jun 29, 2022Updated 3 years ago
- Mapping 3′UTR alternative polyadenylation quantitative trait loci through population-scale transcriptomic and genomic data☆14Mar 15, 2023Updated 3 years ago
- ☆10Mar 11, 2025Updated last year
- ☆14May 12, 2023Updated 2 years ago
- Spatiotemporal modeling of spatial transcriptomics☆335Feb 25, 2026Updated last month