User: Darrill

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Darrill0
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Posts by Darrill

<prev • 13 results • page 1 of 2 • next >
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Comment: C: Change NBCI accession numbers to UNIPROT identifiers
... Thanks a lot it was what I was looking for. ...
written 27 days ago by Darrill0
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Comment: A: Change NBCI accession numbers to UNIPROT identifiers
... I see I see thank you. But I'm looking for a program to run in terminal to include it on my pipeline directly... ...
written 28 days ago by Darrill0
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Change NBCI accession numbers to UNIPROT identifiers
... Hi everyone, I have a list of NCBI Accession numbers such as: YP_009332565.1 YP_009326565.1 YP_002354191.1 NP_028703.1 etc And because `mmseq taxonomy` only deal with Uniprot id I need to convert them into Uniprot ids. Does anyone have an idea or a tools to do such a work? ...
ncbi uniprot written 28 days ago by Darrill0
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Comment: C: Get a heatmap with phylogeny and gene informations with R
... I know this tools but I'm looking for something more "malleable". Thank you for your answer. ...
written 5 weeks ago by Darrill0
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Get a heatmap with phylogeny and gene informations with R
... Hi everyone, for a project I actually need to put phylogeny and gene presence/absence information together in the same plot, so I guess a heat map it a good idea for that, but I dot not really know what kind of packages are available for that in R or Python for instance. So the idea is quite simple ...
R written 6 weeks ago by Darrill0
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Samtools and fax, deal with strand
... Hi everyone one, I have a tab file such as : seqnames start end strand 1 scaffold_0 1 50 - 2 scaffold_0 30 120 + 3 scaffold_0 60 400 - 4 scaffold_0 100 300 + and the idea I had was to use Samtools faidx to get all the fasta sequences in my genome from the coordinates `start ...
samtools written 6 weeks ago by Darrill0
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Comment: C: output path issue on Busco (python)
... Ok I see the idea, it is a good one thank you very much for your help. ...
written 8 weeks ago by Darrill0
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6 follow
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output path issue on Busco (python)
... Hi everyone, I'm actually running a busco.py program to find orthologous genes present in all insects in my genomes. To do so I created a bash file to run it on the cluster. Here is the file: #!/bin/bash #SBATCH -t 24:00:00 #SBATCH -e path/busco_job.log/busco_job.error ...
python path busco written 8 weeks ago by Darrill0 • updated 8 weeks ago by h.mon24k
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Comment: C: Recover fasta sequences in database from the blast output 6
... with strand minus there is the same error. ...
written 9 weeks ago by Darrill0
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Comment: C: Recover fasta sequences in database from the blast output 6
... yes the >> method works thank you very much for your help. Now there is juste the start and end size issue When start is higher than end it says: BLAST engine error: Failed to parse sequence range (start cannot be larger than stop) When I do: blastdbcmd -db path/db_lh/makedb_lh2 - ...
written 9 weeks ago by Darrill0

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