satijalab / scChromHMMView external linksLinks
𧬠π¦ A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.
β29Sep 9, 2021Updated 4 years ago
Alternatives and similar repositories for scChromHMM
Users that are interested in scChromHMM are comparing it to the libraries listed below
Sorting:
- Combined clonality and transcriptome scRNAseq clustering methodβ11Dec 3, 2022Updated 3 years ago
- HiC-Reg is a tool to predict Hi-C contact counts from one-dimensional regulatory signalsβ11Aug 25, 2020Updated 5 years ago
- k-mer similarity analysis pipelineβ22Nov 20, 2025Updated 2 months ago
- ProSolo, variant calling from single cell DNA-seq data, or: bulk backing vocals for single cell solos.β21Sep 1, 2021Updated 4 years ago
- Workshop: RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeRβ13Aug 23, 2021Updated 4 years ago
- Evaluation of the effect of quantification choices on RNA velocity estimatesβ27Nov 6, 2021Updated 4 years ago
- β22Oct 6, 2023Updated 2 years ago
- β15Nov 9, 2018Updated 7 years ago
- Reproducing all analyses and figures for the ASAP-seq paperβ29Jun 11, 2021Updated 4 years ago
- An efficient index for the colored, compacted, de Bruijn graphβ111Oct 7, 2024Updated last year
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq dataβ42Apr 7, 2022Updated 3 years ago
- HiCtrans is a pipeline to call translocations from Hi-C dataβ17Sep 27, 2021Updated 4 years ago
- Bead-based single-cell atac processingβ33Nov 13, 2021Updated 4 years ago
- Allele-Specific Quantification of Structural Variations in Cancer Genomesβ18Mar 5, 2019Updated 6 years ago
- Color DNA/RNA bases in terminal outputβ21Aug 29, 2017Updated 8 years ago
- Mapping pipeline for snmC-seq based technologies.β20Sep 25, 2023Updated 2 years ago
- Hera-T, a fast and accurate tool for estimating gene abundances in single cell data generated by the 10X-Chromium protocolβ18Nov 9, 2021Updated 4 years ago
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representationβ79Jan 24, 2025Updated last year
- Mapping-free software for fishing relevant reads in an RNA-Seq sampleβ19Dec 9, 2020Updated 5 years ago
- β19Jun 8, 2023Updated 2 years ago
- Hidden Markov Model based Copy number callerβ20Dec 9, 2025Updated 2 months ago
- Code to calculate the Splicing Z Score (SpliZ) for single cell RNA-seq splicing analysisβ35Dec 17, 2021Updated 4 years ago
- Interface to 10x Genomics' 1.3 m single cell data setβ18Aug 2, 2018Updated 7 years ago
- Fast fusion detection using kallistoβ79Jun 11, 2025Updated 8 months ago
- β57Aug 11, 2022Updated 3 years ago
- Store collections of experimental data based on TileDBβ12Updated this week
- Toolkit for Single-Cell Velocityβ59Jul 8, 2025Updated 7 months ago
- R package for modeling single cell UMI expression data using regularized negative binomial regressionβ250Jan 10, 2026Updated last month
- Improved multi-sample transcript abundance estimates using adaptive priorsβ20Oct 29, 2018Updated 7 years ago
- Fast multi-line FASTA/Q reader in several programming languagesβ176Jun 6, 2021Updated 4 years ago
- Tools for single-cell data processingβ132May 27, 2024Updated last year
- Streaming algorithm for computing kmer statistics for massive genomics datasetsβ54Feb 18, 2020Updated 5 years ago
- Analysis of Paired-Tag datasetsβ43Jan 19, 2024Updated 2 years ago
- Examples analyses using the single-cell RNA-seq data from mouse cell atlasesβ22Sep 16, 2019Updated 6 years ago
- MultiBreak-SV identifies structural variants from next-generation paired end data, third-generation long read data, or data from a combinβ¦β12Jul 19, 2016Updated 9 years ago
- Add functional variant annotation to MAF fileβ11Nov 20, 2024Updated last year
- Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.β11Jul 8, 2025Updated 7 months ago
- High-performance sparse data representation and manipulation in Rβ11Dec 16, 2025Updated last month
- Integrated Genome Modeling (IGM): multi-modal data-driven simulator of genome structuresβ12Jun 15, 2023Updated 2 years ago