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Results tagged with kegg
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user 3848
1
vote
Accepted
How to extract sequences of a specific gene from genomes, with genomes' .fna, .gff and resul...
There are ALOT of other approaches to this problem BTW and all have over-reliance on KEGG, whilst it is the most comprehensive database available, is not perfect. … KEGG per se omits upwards of half of all genes. Nobody else needs to know that but as long as you are aware of this thats fine. …
M__♦
- 13k
0
votes
1
vote
Accepted
eggNOG: DNA-DNA or protein-protein orthologue identification?
I can answer this now. I've been 'under the hood' of eggNOG and its using "hmm" (hidden Markov model) very likely, almost certain, the Eddie (sp?) group's hmmer to cluster proteins associated. It repr …
M__♦
- 13k
1
vote
MEGA11 gives the error "stop codons are found in the translated sequences", even though ther...
I'm still interested in how you interrogated KEGG gene DB BTW …
M__♦
- 13k
0
votes
Accepted
Refactoring pandas using an iterator via chunksize
The solution posted by @el_oso and @Corralien here was as follows:
if you're already having memory issues reading the file, the below will actually read and write to the new file in chunks.
cols_to_ …
M__♦
- 13k