User: genomes_and_MGEs

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Posts by genomes_and_MGEs

<prev • 37 results • page 1 of 4 • next >
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(Closed) Move files that match the names on a list
... Hey everyone, I have a directory with several files, and I would like to move the files that match the name in a given list to another directory. Can you help me out with this? Thanks! ...
genome sequence written 6 weeks ago by genomes_and_MGEs0 • updated 6 weeks ago by badredda110
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List names in column that match a given word in another column
... Hey guys, I would like to list all lines in column 1 that match a given expression in column 3. For example, 1 2 3 A B C D E F G H C ... So, I would like to list A and G, because they match the C on column 3. Btw, the match in column 3 has spaces! Thank you! ...
genome sequence written 6 weeks ago by genomes_and_MGEs0 • updated 6 weeks ago by genomax71k
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Comment: C: Kill nohup bash process
... It doesn't work, because the PID is always changing on the server... So, I found a solution: pkill -STOP -P the_ppid Thanks anyway guys! ...
written 3 months ago by genomes_and_MGEs0
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6 follow
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Kill nohup bash process
... Hey guys, I ran this nohup bash -c 'for next in $(cat all_bacteria_links.txt); do wget -P all_bacteria "$next"/*genomic.fna.gz; done', and now I want to kill the process. I ran the command in ssh server, so whenever I try to kill PID or kill -9 PID, the server connection closes. Can you ple ...
genome sequence written 3 months ago by genomes_and_MGEs0 • updated 3 months ago by Santosh Anand4.9k
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Comment: C: Download genomes within a given GC content interval
... Thanks, really appreciate that! ...
written 3 months ago by genomes_and_MGEs0
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Download genomes within a given GC content interval
... Hey guys, Does anyone have a clue on how to download only complete genomes with a given GC content from NCBI? Let's say, download all complete genomes that have a GC content from 40 to 50. Thank you! ...
genome assembly sequence written 3 months ago by genomes_and_MGEs0 • updated 3 months ago by genomax71k
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Comment: C: Remove text flanking .. on fasta-headers
... Thanks, saved my day! ...
written 5 months ago by genomes_and_MGEs0
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Remove text flanking .. on fasta-headers
... Hi guys, I have a multi-fasta like this >Citrobacter_freundii_D8_6645..17576 gtgatcgtcaagaaggttaagaacccgcagaaggcagca >Enterobacter_hormaechei_35012_3830..23574 atggacgatagagaaagaggcttagcatttttatttgcaatt And I would like to eliminate the numbers flanking .., to have an output ...
genome sequence written 5 months ago by genomes_and_MGEs0 • updated 5 months ago by Joe14k
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Comment: C: Outputting strain name on prokka annotation
... Thanks, it's working out! Thank you for your patience, but I'm just a beginner on this. Cheers ...
written 6 months ago by genomes_and_MGEs0
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Comment: C: Outputting strain name on prokka annotation
... For each, I get this java -ea -Xmx1g -cp /home/luisa/bbmap/current/ jgi.RenameReads in=Escherichia_coli_VREC0208.fasta out=Escherichia_coli_VREC0208 prefix=Escherichia_coli_VREC0208.fasta addprefix=t Executing jgi.RenameReads [in=Escherichia_coli_VREC0208.fasta, out=Escherichia_coli_VREC020 ...
written 6 months ago by genomes_and_MGEs0 • updated 6 months ago by genomax71k

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