ermineR
R wrapper for ermineJ (by PavlidisLab)
Baltica
Baltica: integrated differential junction usage (by dieterich-lab)
| ermineR | Baltica | |
|---|---|---|
| 1 | 1 | |
| 6 | 7 | |
| - | - | |
| 0.0 | 2.6 | |
| over 1 year ago | about 1 year ago | |
| R | R | |
| GNU General Public License v3.0 or later | 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.
ermineR
Posts with mentions or reviews of ermineR.
We have used some of these posts to build our list of alternatives
and similar projects.
-
Gene ontology of differentially expressed genes in R
I would recommend ermineJ as thier statistical approach is better suited to overcome issues with how GO is constructed and the imbalance in the sizes of GO terms (sizes meaning the number of genes assigned). They have a graphical, command line interface and an R package link
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 ermineR and Baltica you can also consider the following projects:
full_spectrum_bioinformatics - An open-access bioinformatics text
awesome-single-cell - Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
rhmmer - Simple R utilities for working with HMMER
orthologr - Genome wide orthology inference and dNdS estimation
drugfindR - Repository holding the code for the drugfindR R package