A SingleCell RNASeq pre-processing pipeline built on snakemake
☆14Jan 11, 2023Updated 3 years ago
Alternatives and similar repositories for single-cell-drop-seq
Users that are interested in single-cell-drop-seq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.☆108Nov 22, 2022Updated 3 years ago
- ☆10Apr 28, 2019Updated 6 years ago
- dotfiles, batteries included☆21Jan 29, 2026Updated 2 months ago
- RNA-seq workflow using STAR and DESeq2☆355Dec 18, 2025Updated 3 months ago
- A lightweight reimplementation of some of the algorithms in the MEME suite in Python.☆32Mar 17, 2026Updated 3 weeks 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.
- This project is a fork of Pila's Steam Controller Singer, including a dirty fix to make the Steam Controller sing again.☆36Oct 5, 2022Updated 3 years ago
- Snakemake pipeline for microexon discovery and quantification☆20Jan 16, 2025Updated last year
- A repo with random short code snippets☆41May 27, 2019Updated 6 years ago
- Manage the visualization of large amounts of other people's [often messy] genomics data☆18Apr 10, 2016Updated 10 years ago
- ☆18Jul 15, 2025Updated 8 months ago
- Examples of great academic lab expectations, manuals, policies for joining and being in the lab☆51Jul 25, 2019Updated 6 years ago
- splicing and feature maps for RBPs☆25Mar 11, 2026Updated last month
- A Snakemake pipeline for cellranger to process 10x single-cell RNAseq data☆16Oct 15, 2019Updated 6 years ago
- ☆23Jun 7, 2024Updated last year
- Serverless GPU API endpoints on Runpod - Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- scRNA-seq analysis beyond gene annotations using transcriptionally active regions (TARs) generated from sequence alignment data☆10Jul 25, 2022Updated 3 years ago
- Documentation of the Snakemake-Workflows project☆157Feb 2, 2022Updated 4 years ago
- A snakemake pipeline for 10X genomics cellranger☆22Oct 13, 2025Updated 6 months ago
- Advanced steps of the OSCA book☆14Nov 19, 2025Updated 4 months ago
- Curated list of bioinformatics formats and publications☆54Mar 18, 2019Updated 7 years ago
- ☆12Oct 4, 2021Updated 4 years ago
- ☆12Nov 20, 2023Updated 2 years ago
- Declarative group-wise count and compute, describing your target table☆13Jan 8, 2026Updated 3 months ago
- This is an unsupported fork of the PacBio blasr aligner. It contains my (very beta) optimizations and new functionality. It may disappea…☆22Apr 14, 2019Updated 7 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.
- extract gene TSS/TES site form gencode/ensembl/gencode database GTF file and export bed format file.☆11Jan 24, 2022Updated 4 years ago
- Chromatin States Map in mouse embryonic stem cell☆19Apr 11, 2018Updated 8 years ago
- scDataviz: single cell dataviz and downstream analyses☆66Sep 24, 2021Updated 4 years ago
- ☆17Sep 28, 2022Updated 3 years ago
- A method to rapidly assess cell type identity using both functional and random gene sets☆13May 2, 2019Updated 6 years ago
- This Snakemake pipeline implements the GATK best-practices workflow☆262Jun 8, 2023Updated 2 years ago
- An online database of variants functionally demonstrated to affect (or not affect) splicing.☆11Mar 20, 2025Updated last year
- Package for analysis and characterization of differential TADs☆27Apr 25, 2022Updated 3 years ago
- ☆12Dec 14, 2021Updated 4 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.
- ☆15Jun 22, 2022Updated 3 years ago
- Automated marker-based annotation of cell types☆14Aug 8, 2022Updated 3 years ago
- Pipeline for generating RNAseq-based cancer patient reports☆11Mar 10, 2026Updated last month
- Wrapper over rust-htslib for building collections of BAM records for testing.☆10Dec 1, 2025Updated 4 months ago
- Multi-agent LLM driven cell type annotation for single-cell RNA-Seq data☆33Mar 18, 2026Updated 3 weeks ago
- Ultra-efficient and sensitive method to search for Open Reading Frames in spliced genomes guided by reference annotation to maximize prot…☆43Mar 21, 2026Updated 3 weeks ago
- Protein scoring and sampling of 'Combinatorial Variant Effects from Structure' (CoVES)☆11Jan 5, 2024Updated 2 years ago