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It can take several hours to calculate and store metadata for large numbers of genomes. This may be due to the size of the database transaction. Can this be improved? Is it simple enough to do this in…
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commond : RepeatModeler -pa 32 -database HWDY -engine ncbi > repeatmodeler.log
RepeatClassifier Version 2.0.2 …
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Thanks for the really nice package!
A question (rather than an issue): is there any official trained model and where does it exist in package? Thank U :)
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Hello,
I was reading your paper and was very interested to apply this to my dataset.
DO you happen to have a wrapper script for this entire pipeline or a sequential order in how the scripts must b…
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> http://dx.doi.org/10.1371/journal.pone.0141287
>
> **Motivation:** We introduce a new representation and feature extraction method for biological sequences. Named bio-vectors (BioVec) to refer to…
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Greetings -
There is a group of genomes in BV-BRC from Bioproject: PRJNA745059 that all occur in 4 copies , of which 3 are flagged "Deprecated" , while the 4th is flagged as "WGS" in this field: **…
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@lindseyfaye @rsmoak I have created a new subfolder to contain all analyses for the two protein families you have worked on. I suggest you start organizing the data and analyses in this folder -- prot…
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Hi David,
I devoted in gene families in maize.To identity the paralog of Sn2k gene family in maize,I ran orthofinder with 20 different species.I got maize-SnRk2 protein by using Arabidopsis thaliana…
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The OFFICIAL ticket for this. Related to https://github.com/pantherdb/features-bugs/issues/20 as that ticket is about formatting the input for this ticket's new code.
Currently being developed in h…
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In the hotpep README you have the following:
> [hits] = integer > 0. Represents the minimum number of unique camers
> found to annotate a gene.
What are `camers`. Is it perhaps a different …