ermineR
R wrapper for ermineJ (by PavlidisLab)
full_spectrum_bioinformatics
An open-access bioinformatics text (by zaneveld)
| ermineR | full_spectrum_bioinformatics | |
|---|---|---|
| 1 | 1 | |
| 6 | 67 | |
| - | - | |
| 0.0 | 6.2 | |
| over 1 year ago | about 2 months ago | |
| R | Jupyter Notebook | |
| GNU General Public License v3.0 or later | - |
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
full_spectrum_bioinformatics
Posts with mentions or reviews of full_spectrum_bioinformatics.
We have used some of these posts to build our list of alternatives
and similar projects.
-
Beginner's bioinformatics books for someone without any knowledge in biology?
A former advisor of mine wrote this up a bit ago and I felt it was solid (also a CS major but did some bio work and his text was written with that in mind). https://github.com/zaneveld/full_spectrum_bioinformatics
What are some alternatives?
When comparing ermineR and full_spectrum_bioinformatics you can also consider the following projects:
rhmmer - Simple R utilities for working with HMMER
poly - A Go package for engineering organisms.
Baltica - Baltica: integrated differential junction usage
pydna - Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.
orthologr - Genome wide orthology inference and dNdS estimation
amazon-genomics-cli-demos - Demos of what can be done with the Amazon Genomics CLI
virnet - VirNet: A deep attention model for viral reads identification
Hail - Cloud-native genomic dataframes and batch computing