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DEAR Prof. BRAIN @brianjohnhaas
Hi, I have identified the genes in my genome using EVM (as discussed with you before, the results and process can be roughly referred to https://github.com/EViden…
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Hi Liz,
For about 60 clusters I have an error running reconstruct_contig.py:
example error report:
$ cat slurm-19441671.out
2.17-r941
/var/spool/slurm/d/job19441671/slurm_script : ligne 10…
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Hello,
I attempted to run clustering of reads on my fasta reads, but it terminates after a few minutes of starting.
```Reading fasta file... Done
terminate called after throwing an instance of 's…
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Hello,
I am trying to reconstruct BCR from my B-cell single cells dataset and I am wondering which genome annotation you provide: ensembl, UCSC etc.. Could you please add this info so that my map…
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**Are you using the latest release?**
Yes.
**Describe the bug**
I've obtained the final gff after running 'funannotate annotate'. However, I've noticed that a lot of the gene names have underscor…
jdee3 updated
8 months ago
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Hello,
Curious if the 5'prime partial ORFs, which lack start codon (M), should be considered for the downstream analyses?. Also, is it preferable to consider only the longest ORFs per gene/transcript…
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Coordinates based on transcripts depend on the exon structure at least. Coding position requires also cds start and end.
Proposal: Implement TranscriptLocation, à la HGVS, by creating a class that …
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Hi,
I'm looking at the and product of CAT, run only using TransMap and excluding the indel classification `r.extend(find_indels(tx, psl, aln_mode))`.
I'm now trying to build a table of orthologs…
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max number of tokens I am able to run thru bark generate_text_semantic() is about 40, ~ 24 words or so.
I looked thru the code and noticed that generate_text_semantic() clips anything over 256 and…
xvdp updated
3 months ago