lima1 / sttkitLinks
Pipeline for SpatialTranscriptomics and 10X Visium data
☆21Updated last month
Alternatives and similar repositories for sttkit
Users that are interested in sttkit are comparing it to the libraries listed below
Sorting:
- Cell type specific enrichments using finemapped variants and quantitative epigenetic data☆45Updated last year
- Inference of Minimal Event Distance Aneuploidy Lineage Tree based on single cell copy number profile☆19Updated last year
- Repository for scRNAseq study of human kidneys☆15Updated 6 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆43Updated 4 years ago
- ☆32Updated 6 years ago
- SIB/Scilifelab autumn school in single cell omics 2019.☆22Updated 5 years ago
- Bead-based single-cell atac processing☆33Updated 3 years ago
- Scripts needed to generate the figures for the Monocle 2 paper (Qiu et al, 2017)☆29Updated 4 years ago
- Public code repository for the Banovich Lab at the Translational Genomics Research Institute (TGen).☆46Updated last year
- R package for SIGMA, a clusterability measure for scRNA-seq data☆12Updated 3 years ago
- This repository contains HCA Benchmarking codes☆26Updated 5 years ago
- ☆41Updated 4 years ago
- ☆40Updated 7 years ago
- Cluster Identity Predictor (R package implementation)☆20Updated 3 years ago
- Ordering gene-expression and functional events in single-cell experiments☆22Updated last year
- Alleloscope is a method for allele-specific copy number estimation that can be applied to single cell DNA and ATAC sequencing data (separ…☆29Updated 2 years ago
- Repository containing all code for secondary analysis in the manuscript "On the design of CRISPR-based single cell molecular screens", Hi…☆26Updated 3 years ago
- An R package to plot maps of clone distributions in somatic evolution☆17Updated last year
- Single-cell Orientation Tracing☆21Updated 3 years ago
- Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data☆38Updated 3 years ago
- A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method☆43Updated 4 years ago
- Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation☆21Updated 11 months ago
- This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…☆26Updated 8 months ago
- cell type deconvolution for multi-condition bulk RNA-seq data☆26Updated 3 years ago
- An r package that works as a wrapper to homologene☆46Updated last year
- Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis☆23Updated 2 years ago
- psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels☆40Updated 2 years ago
- Rmarkdown / compiled html files for human reprogramming dataset analysis☆18Updated 5 years ago
- ☆34Updated 6 years ago
- Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018☆22Updated 6 years ago