FastIntegration
FastIntegrate integrates thousands of scRNA-seq datasets and outputs batch-corrected values for downstream analysis (by JinmiaoChenLab)
scarches
Reference mapping for single-cell genomics (by theislab)
| FastIntegration | scarches | |
|---|---|---|
| 1 | 1 | |
| 21 | 313 | |
| - | 3.8% | |
| 0.0 | 6.9 | |
| over 1 year ago | about 2 months ago | |
| R | Jupyter Notebook | |
| - | BSD 3-clause "New" or "Revised" License |
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.
scarches
Posts with mentions or reviews of scarches.
We have used some of these posts to build our list of alternatives
and similar projects.
-
Researchers Introduce Single-Cell Architecture Surgery (scArches), A Deep Learning Strategy For Mapping Single-Cell Data to Reference Atlases
GitHub: https://github.com/theislab/scarches
What are some alternatives?
When comparing FastIntegration and scarches you can also consider the following projects:
first-order-model - This repository contains the source code for the paper First Order Motion Model for Image Animation
seurat-docker - Docker images of Seurat
gEAR - The gEAR Portal was created as a data archive and viewer for gene expression data including microarrays, bulk RNA-Seq, single-cell RNA-Seq and more.