A pipeline for processing single cell RNA-seq data generated with the SmartSeq2 protocol.
☆17Apr 26, 2021Updated 4 years ago
Alternatives and similar repositories for smartseq2
Users that are interested in smartseq2 are comparing it to the libraries listed below
Sorting:
- Nextflow pipeline that runs DESeq2 on data processed with the nextflow RNAseq pipeline☆13Dec 2, 2025Updated 3 months ago
- ☆19Aug 20, 2024Updated last year
- Repository containing the scripts regarding analyses in Zufferey & Tavernari et al.☆10Feb 22, 2021Updated 5 years ago
- ☆12Nov 7, 2022Updated 3 years ago
- A modular, containerized pipeline for PRO-seq data processing☆11Mar 6, 2026Updated 2 weeks ago
- Web-site for the 2020 CRUK CC Bioinformatics Summer School (Held virtually)☆24Mar 4, 2021Updated 5 years ago
- ☆13Jul 11, 2023Updated 2 years ago
- Scripts used for the Differential NicheNet analyses in the Liver Atlas paper Guilliams et al., Cell 2022☆10Jan 12, 2022Updated 4 years ago
- This pipeline has moved! Please see:☆11Mar 12, 2018Updated 8 years ago
- A novel unsupervised batch removal framework, called iMAP, based on neural networks.☆35Jan 12, 2022Updated 4 years ago
- ☆120Sep 5, 2023Updated 2 years ago
- Modeling Latent Flow Structure using Hodge Decomposition☆16Mar 13, 2025Updated last year
- Pathway-based trajectory inference method for time-series scRNAseq data☆25May 18, 2021Updated 4 years ago
- Course Website☆345Updated this week
- A R package for integrated scRNA-seq data analysis using the RPCI algorithm☆44Mar 30, 2024Updated last year
- R package that allows for visualization of the KNN of an embedding compared to the KNN of the original high-dimensional data.☆21May 21, 2025Updated 9 months ago
- R code for metaanalysis of single cell liver data☆12Feb 1, 2021Updated 5 years ago
- Adaptive Daisy Model to discriminate core-fitness/context-specific essential genes in large scale CRISPR-Cas9 screens☆24Mar 29, 2019Updated 6 years ago
- BraCeR - reconstruction of B cell receptor sequences from single-cell RNAseq data☆42Oct 15, 2025Updated 5 months ago
- R package☆27Aug 16, 2020Updated 5 years ago
- Particle dynamics and simulated annealing for chromosome structure calculation☆18Jan 17, 2018Updated 8 years ago
- Hi-C Interaction Frequency Inference (HIFI): High-resolution estimation of DNA-DNA interaction frequency from Hi-C data☆24Sep 28, 2022Updated 3 years ago
- Data and code for the paper "Developmental diversification of cortical inhibitory interneurons"☆24Dec 20, 2018Updated 7 years ago
- A legacy repository. Was replaced by distiller, cooler, and cooltools.☆21Mar 4, 2020Updated 6 years ago
- ☆64Aug 14, 2020Updated 5 years ago
- ASAP-SML: An Antibody Sequence Analysis Pipeline Using Statistical Testing and Machine Learning☆11Jul 6, 2023Updated 2 years ago
- Machine Learning with Digital Signal Processing☆22Jan 21, 2019Updated 7 years ago
- Code for reproducing the results of the preprint Maximally Predictive Ensemble Dynamics from Data (2021)☆16Sep 25, 2025Updated 5 months ago
- Rust wrapper for STAR aligner☆19Updated this week
- A tool that lauches docker jobs on Amazon EC2.☆10May 7, 2019Updated 6 years ago
- Procedure to create monkey brain surfaces and project results to it☆16Feb 14, 2025Updated last year
- UniverSC: a flexible cross-platform single-cell data processing pipeline☆46Feb 25, 2024Updated 2 years ago
- ☆12Nov 15, 2018Updated 7 years ago
- Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data☆29Mar 2, 2020Updated 6 years ago
- A detailed guide to analise and integrate small-RNASeq and RNASeq samples using miARma-Seq☆11Oct 16, 2019Updated 6 years ago
- A Perl pipeline for identifying marker genes and build phylogenetic trees for a set of genomes☆14Jun 19, 2017Updated 8 years ago
- ☆13Jun 6, 2024Updated last year
- Automated marker-based annotation of cell types☆14Aug 8, 2022Updated 3 years ago
- Code repository for the snRNA-seq cross-tissue atlas project☆21Feb 22, 2022Updated 4 years ago