|
None |
76 |
kallisto | bustools workflow for pre-processing single-cell RNA-seq data |
Jul 21, 2022 |
|
Shell |
2 |
Hashed scRNA-seq data processing pipeline |
Mar 30, 2022 |
|
Python |
3 |
scNavigator processing pipeline for scRNA-seq data |
Aug 16, 2023 |
|
Python |
75 |
A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing |
Aug 15, 2022 |
|
R |
9 |
A pipeline for scRNA-seq data analysis |
Apr 04, 2023 |
|
Shell |
3 |
ChiP-seq and DNase-seq ,Bulk RNA-seq,scRNA-seq processing pipeline via R and shell |
Jun 07, 2022 |
|
Python |
2 |
CL python script to reformat CITEATAC fastqs for kite (kallisto | bustools) processing |
Oct 30, 2021 |
|
Python |
3 |
CITE-seq pipeline using Salmon and Alevin (HuBMAP scRNA-seq pipeline) |
Apr 14, 2023 |
|
Python |
3 |
scRNA-seq pipeline using Salmon for quantification |
Feb 08, 2022 |
|
Perl |
2 |
MARS-SEQ pipeline (scrna module from tlsrc) |
Nov 17, 2022 |
|
Python |
2 |
Python functions to read the kallisto-bustools format |
Oct 18, 2021 |
|
R |
18 |
scRNA-seq data visualization from scrattch |
Jun 21, 2022 |
|
Python |
154 |
ATAC-seq and DNase-seq processing pipeline |
Apr 21, 2023 |
|
R |
4 |
Inspect kallisto RNA-Seq output |
Oct 31, 2015 |
|
Python |
2 |
Pipeline for processing whole-genome Population STARR-seq data |
May 28, 2021 |
|
R |
42 |
A modular, containerized pipeline for ATAC-seq data processing |
Mar 28, 2023 |
|
Python |
7 |
A modular, containerized pipeline for PRO-seq data processing |
Apr 06, 2023 |
|
R |
7 |
A clusterability measure for scRNA-seq data. |
May 31, 2022 |
|
HTML |
14 |
Marker gene selection from scRNA-seq data |
May 10, 2022 |
|
R |
2 |
scRNA-seq data explorer based on Shiny |
Mar 23, 2022 |
|
Python |
4 |
Cell cycle classifier for scRNA-seq data. |
Feb 25, 2022 |
|
Python |
31 |
Demultiplexing pooled scRNA-seq data with or without genotype reference |
Jul 28, 2022 |
|
Python |
2 |
Spatial Transcritome Annotation with scRNA-seq data and Downstream Analysis |
Nov 18, 2022 |
|
HTML |
8 |
scRNA-Seq analysis vignettes |
Nov 05, 2021 |
|
Python |
3 |
Bench-marking classification tools for scRNA-seq data |
Jun 12, 2022 |
|
R |
8 |
Integrative analysis for scTCR- and scRNA-seq data |
Nov 04, 2022 |
|
Python |
217 |
Deep count autoencoder for denoising scRNA-seq data |
Apr 04, 2023 |
|
R |
8 |
Snakemake workflow to benchmark scRNA-seq data simulators |
Feb 11, 2023 |
|
R |
83 |
Accurate and robust imputation of scRNA-seq data |
Apr 10, 2023 |
|
Python |
166 |
Bench-marking classification tools for scRNA-seq data |
May 15, 2023 |
|
R |
2 |
Shiny app to explore Clytia scRNA-seq data |
Oct 06, 2022 |
|
R |
2 |
Standard preprocessing and processing scRNA-seq pipelines, ready for server use. |
Sep 23, 2022 |
|
Python |
2 |
Snakemake pipeline for processing single-cell combinatorial indexing ATAC seq data |
Oct 10, 2019 |
|
Python |
106 |
ENCODE Uniform processing pipeline for ChIP-seq |
Jun 08, 2022 |
|
Python |
2 |
ENCODE Uniform processing pipeline for ChIP-seq |
Sep 07, 2022 |
|
Nextflow |
14 |
A pipeline for processing single cell RNA-seq data generated with the SmartSeq2 protocol. |
Apr 08, 2022 |
|
Jupyter Notebook |
2 |
Python pipelines for analysis of adipocyte scRNA-seq data |
Feb 24, 2022 |
|
HTML |
2 |
Identifying robust gene-gene correlations in scRNA-seq data |
May 04, 2023 |
|
Python |
2 |
Prediction of RNA splicing kinetics in scRNA-seq data |
Apr 10, 2023 |
|
R |
87 |
Conversion between scRNA-seq objects |
Apr 17, 2023 |
|
Python |
11 |
Consistent Clusters for scRNA-seq |
Nov 25, 2022 |
|
Jupyter Notebook |
5 |
scRNA-seq, regulation, and sysbio |
Jun 17, 2023 |
|
HTML |
7 |
wrapper for single cell transcriptomics pipeline with kallisto |
Oct 02, 2020 |
|
Python |
7 |
scRNA analysis pipeline |
Mar 23, 2023 |
|
None |
2 |
Using a VAE model with flexible priors for modelling scRNA-seq data |
Oct 08, 2020 |
|
C++ |
2 |
Cell-to-cell communication with enriched pathways project, using scRNA-seq data |
Sep 26, 2023 |
|
Shell |
4 |
RNA-seq, smRNA-seq, scRNA-seq & ATAC-seq workflows for @Cornell-Trex |
Oct 14, 2021 |
|
Shell |
13 |
wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq |
Apr 06, 2023 |
|
Python |
6 |
CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data |
May 24, 2022 |
|
R |
60 |
A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth. |
Mar 02, 2023 |