User: Bioinfosenhaji

Reputation:
20
Status:
New User
Location:
France/Marseille
Last seen:
2 months, 1 week ago
Joined:
7 months, 3 weeks ago
Email:
a***********************@usmba.ac.ma

Posts by Bioinfosenhaji

<prev • 31 results • page 1 of 4 • next >
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summury control quality assembly the all genome sequencing
... At bioinformatics college, I've assembled 145 genomes and I wanted to know about the different contigs quality control parameters. How can I get a tabular report of all genomes at once (Tab or csv). I know QUAST and Assembly-Stat, BBmap.but it gives a file for each genome. Thanks to community. Bes ...
assembly control-quality written 3 months ago by Bioinfosenhaji20 • updated 3 months ago by Istvan Albert ♦♦ 85k
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rename the contents of a file
... I extracted genes from prokka .ffn file. I found copies of gene sequences, but the ID differs. I wanted to know how I could change the ID of each of the ??? example I did to replace (.fasta_*****_) with (_) : >2549870-Q2398_S6.fasta_00234_Adenylate_kinase `sed -i 's:.fasta_*******_:_ ...
prokka sequencing written 4 months ago by Bioinfosenhaji20 • updated 4 months ago by Joe18k
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Comment: C: renames files with the same folder name
... All right, thank you very much for the information. ...
written 4 months ago by Bioinfosenhaji20
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Comment: C: renames files with the same folder name
... Thank you very much. I'll try you. ...
written 4 months ago by Bioinfosenhaji20
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renames files with the same folder name
... Hello, in short, I have folders and in each folder there is a file 'call < configs.fasta > and I wanted to get how I can rename the files with the same folder name. I've tried a for loop but it doesn't work. for i in *; do mv /*/contigs.fasta $i.fasta; done -------------------------- ...
rename assembly written 4 months ago by Bioinfosenhaji20
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Comment: C: gene toxin extract by prokka
... Thanks for the exchange, but how can I provide a database of 'trusted proteins' to prokka ? ...
written 5 months ago by Bioinfosenhaji20
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gene toxin extract by prokka
... Hello Briefly , I work on the pangenome of a bacterium that secretes two types of toxins : Toxin A and Toxin B, I m counting on doing Bioinformatics analysis of several strains (145) in order to deduce the mutations in all of them and to know the most severe strains based on the SNP on the ge ...
annotation prokka genomics written 5 months ago by Bioinfosenhaji20
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Comment: C: how I can download 2,333 genomes from the NCBI database ?
... hello sir, please if you have any idea how I can extract the 16S ribosomal from all the clostridium strains to make a phylogeny tree on MEGA-X. ...
written 5 months ago by Bioinfosenhaji20
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how do you extract genes from genomes?
... I'm working on a bacterium that secretes three types of toxins. my goal is to extract these genes to make phylogenetic analyses based on them. if you have any help to do this task was not to help me and thank you. ...
genome assembly sequencing written 5 months ago by Bioinfosenhaji20
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Comment: C: how I can extract files (.fna) that is in multiple folders with a for loop.
... All right, thanks, but I tried several times before I asked the question. thanks ...
written 6 months ago by Bioinfosenhaji20

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