fastq utilsValidation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.
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Mutual labels: single-cell, 10x
alevin-fry🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.
Stars: ✭ 78 (+25.81%)
Mutual labels: single-cell, 10x
cellSNPPileup biallelic SNPs from single-cell and bulk RNA-seq data
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Mutual labels: single-cell
SCopeFast visualization tool for large-scale and high dimensional single-cell data
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Mutual labels: single-cell
scPowerExperimental design framework for scRNAseq population studies (eQTL and DE)
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Mutual labels: single-cell
babelDeep learning model for single-cell inference of multi-omic profiles from a single input modality.
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Mutual labels: single-cell
cardelinoClone identification from single-cell data
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Mutual labels: single-cell
kmer-homology-paperManuscript for functional prediction of transcriptomic “dark matter” across species
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Mutual labels: single-cell
NGSNext-Gen Sequencing tools from the Horvath Lab
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Mutual labels: single-cell
SPLiT-Seq demultiplexingAn unofficial demultiplexing strategy for SPLiT-seq RNA-Seq data
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Mutual labels: single-cell
scATAC-proA comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
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Mutual labels: single-cell
velodynDynamical systems methods for RNA velocity analysis
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Mutual labels: single-cell
netSmoothnetSmooth: A Network smoothing based method for Single Cell RNA-seq imputation
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Mutual labels: single-cell
CrossTalkeRR package to do the Ligand Receptor Analysis Visualization
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Mutual labels: single-cell
scarchesReference mapping for single-cell genomics
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Mutual labels: single-cell
scAlignA deep learning-based tool for alignment and integration of single cell genomic data across multiple datasets, species, conditions, batches
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Mutual labels: single-cell
dbMAPA fast, accurate, and modularized dimensionality reduction approach based on diffusion harmonics and graph layouts. Escalates to millions of samples on a personal laptop. Adds high-dimensional big data intrinsic structure to your clustering and data visualization workflow.
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Mutual labels: single-cell
Awesome Single CellCommunity-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
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Mutual labels: single-cell
SCICoNESingle-cell copy number calling and event history reconstruction.
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Mutual labels: single-cell
dyngenSimulating single-cell data using gene regulatory networks 📠
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Mutual labels: single-cell
