FastIntegration
FastIntegrate integrates thousands of scRNA-seq datasets and outputs batch-corrected values for downstream analysis (by JinmiaoChenLab)
scDblFinder
Methods for detecting doublets in single-cell sequencing data (by plger)
| FastIntegration | scDblFinder | |
|---|---|---|
| 1 | 1 | |
| 21 | 135 | |
| - | - | |
| 0.0 | 6.7 | |
| over 1 year ago | 2 months ago | |
| R | R | |
| - | GNU General Public License v3.0 only |
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
FastIntegration
Posts with mentions or reviews of FastIntegration.
We have used some of these posts to build our list of alternatives
and similar projects.
-
How to integrate 2 million+ cells from scRNA-seq dataset without needing a huge amount of RAM?
I found an implementation of Seurat called FastIntegration which I think should work, but I am waiting on IT to grant me permission to run a cluster job with more RAM (1 TB wasn't enough). In the meantime, I am searching for another option - ideally, one that doesn't need terabytes of RAM.
scDblFinder
Posts with mentions or reviews of scDblFinder.
We have used some of these posts to build our list of alternatives
and similar projects.
-
Are there any methods for doublet deconvolution?
The scDblFinder method identifies doublets by combining singlet profiles to generate artificial doublets, then finding the nearest neighbors to those artificial profiles. You could use this approach to deconvolve your doublets, inferring that the two cells in the actual observed doublet are of the same cell types as those used to generate the nearest artificial doublet profile.
What are some alternatives?
When comparing FastIntegration and scDblFinder you can also consider the following projects:
awesome-single-cell - Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.