awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc. (by seandavi)
Baltica
Baltica: integrated differential junction usage (by dieterich-lab)
awesome-single-cell | Baltica | |
---|---|---|
3 | 1 | |
2,927 | 7 | |
- | - | |
5.2 | 2.6 | |
about 2 months ago | about 1 year ago | |
R | ||
MIT License | MIT 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.
awesome-single-cell
Posts with mentions or reviews of awesome-single-cell.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-08-21.
- Staying up to date with processes/technology.
- Ex Python users who switched to 100% R (or almost)
-
Guidance regarding bulk and scRNA seq analysis.
That may be useful: https://github.com/seandavi/awesome-single-cell
Baltica
Posts with mentions or reviews of Baltica.
We have used some of these posts to build our list of alternatives
and similar projects.
-
Novel Splice Variants in RNAseq Data
Also, we've been working on a framework with multiple workflows for differential splicing: Baltica: integrated differential junction usage (DJU) https://github.com/dieterich-lab/Baltica . Please have on mind that Baltica is work in progress, but the workflows are quite mature. Fell free to contact me if you have any questions!
What are some alternatives?
When comparing awesome-single-cell and Baltica you can also consider the following projects:
cellsnp-lite - Efficient genotyping bi-allelic SNPs on single cells
rhmmer - Simple R utilities for working with HMMER
MultiQC - Aggregate results from bioinformatics analyses across many samples into a single report.
drugfindR - Repository holding the code for the drugfindR R package
Awesome-Bioinformatics - A curated list of awesome Bioinformatics libraries and software.
ermineR - R wrapper for ermineJ
scDblFinder - Methods for detecting doublets in single-cell sequencing data
DGE_workshop