bioconvert
Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another. (by bioconvert)
DNABERT
DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome (by jerryji1993)
| bioconvert | DNABERT | |
|---|---|---|
| 1 | 1 | |
| 376 | 669 | |
| 0.0% | 5.4% | |
| 6.1 | 3.1 | |
| over 1 year ago | over 1 year ago | |
| Python | Python | |
| GNU General Public License v3.0 only | Apache License 2.0 |
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.
bioconvert
Posts with mentions or reviews of bioconvert.
We have used some of these posts to build our list of alternatives
and similar projects.
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found a script in a file i was sent and I'm wondering what exactly it does.
Hmm, so this sed construct seems to be used in a project called "bioconvert" for compressing fasta files.
DNABERT
Posts with mentions or reviews of DNABERT.
We have used some of these posts to build our list of alternatives
and similar projects.
-
[D] New to DNABERT
If I want to get started, they said it's optional to pre-train (so you can skip to step 3). This is where I got tripped up: "Note that the sequences are in kmer format, so you will need to convert your sequences into that." From what I understand, you need to do this so that all of the sequences are the same length? So kmer=6 means all of the sequences are length 6? Someone suggested that I take the first nucleotide in the promoter and grab 3 nucleotides before and 3 nucleotides after (+/-3 bases). I don't think that's how the kmer thing works though? I tried replicating how I think it works down below (I got confused on the last row of the 'after' df). Please correct me if I'm wrong!
What are some alternatives?
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