dynmethodsA collection of 50+ trajectory inference methods within a common interface 📥📤
Stars: ✭ 94 (-44.71%)
Mutual labels: single-cell-rna-seq
scedarSingle-cell exploratory data analysis for RNA-Seq
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Mutual labels: single-cell-rna-seq
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 (-54.12%)
Mutual labels: single-cell-rna-seq
squidpySpatial Single Cell Analysis in Python
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Mutual labels: single-cell-rna-seq
SOTSingle-cell Orientation Tracing
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OrchestratingSingleCellAnalysis-releaseAn online companion to the OSCA manuscript demonstrating Bioconductor resources and workflows for single-cell RNA-seq analysis.
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Mutual labels: single-cell-rna-seq
pipeCompA R framework for pipeline benchmarking, with application to single-cell RNAseq
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StackedDAEStacked Denoising AutoEncoder based on TensorFlow
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Mutual labels: single-cell-rna-seq
scisorseqrscisorseqr is an R-package for processing of single-cell long read data and analyzing differential isoform expression across any two conditions
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Mutual labels: single-cell-rna-seq
SINCERAAn R implementation of the SINCERA pipeline for single cell RNA-seq profiling analysis
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Mutual labels: single-cell-rna-seq
scTCRseqProcessing of single cell RNAseq data for the recovery of TCRs in python
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diffxpyDifferential expression analysis for single-cell RNA-seq data.
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metacellMetacell - Single-cell mRNA Analysis
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scarfToolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.
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EWCEExpression Weighted Celltype Enrichment. See the package website for up-to-date instructions on usage.
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scRNAseq cell cluster labelingScripts to run and benchmark scRNA-seq cell cluster labeling methods
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scLearnscLearn：Learning for single cell assignment
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dropEstPipeline for initial analysis of droplet-based single-cell RNA-seq data
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kmer-homology-paperManuscript for functional prediction of transcriptomic “dark matter” across species
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D3EDiscrete Distributional Differential Expression
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Mutual labels: single-cell-rna-seq
