User: Buffo

gravatar for Buffo
Buffo460
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460
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2 weeks, 3 days ago
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1 year, 2 months ago
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Posts by Buffo

<prev • 136 results • page 1 of 14 • next >
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Comment: C: restructure rows and columns in perl or python (Interleaving columns by row pair
... You are a very funny person WouterDeCoster :). I'm glad you're learning to program but, in addition to online courses I recommend using common sense, sometimes it is very useful! Best. ...
written 21 days ago by Buffo460
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Comment: C: restructure rows and columns in perl or python (Interleaving columns by row pair
... > Also, it allows specifying both the output name and output directory. prefix = sys.argv[1].split('.')[0] output = open(prefix + '_output.txt', 'w') #you will never have to specify output name or directory > you should use the 'with' statement for opening files ??? Why? ...
written 21 days ago by Buffo460
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Comment: C: restructure rows and columns in perl or python
... More profesional use .write: import sys output = open('output.txt', 'w') with open(sys.argv[1]) as input: while True: line1 = [item for item in input.readline().split()] if len(line1) == 0: break line2 = [item for item in input.readline().split( ...
written 21 days ago by Buffo460
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UTR-DB accession numbers?
... Hi everybody, Somebody has worked with UTR-DB? I`m working with miRNA target prediction, so I need 3' UTRs, this is available on UTRdb, but each sequence name corresponds to accession number and locus which is absolute useless, I need the name of the protein that corresponds to that UTR for each se ...
utrdb dowloaddb accession written 23 days ago by Buffo460
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Comment: C: Blastx versus nr?
... Thanks, I had heard about that, but I was looking for a suitable solution with blast, I will try diamond. ...
written 23 days ago by Buffo460
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Blastx versus nr?
... Hi everybody, I want to perform a blastx versus nr locally for 2200 sequences, it is normal to take long long time? expected time to make it is about 800 hours!! Somebody has had the same problem? Any suggestions? ...
blastx long_time computing_hours blast written 23 days ago by Buffo460 • updated 22 days ago by Jacob Warner310
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Comment: C: miRanda output meaning?
... In order to parse the output try: grep -A 1 "Scores for this hit:" miranda_out.txt | sort | grep '>' you will get: >mirna_name transcript_target 143.00 -22.87 2 18 339 357 16 75.00% 87.50% And this is the header: mirna Target Score Energy-Kcal/Mol Quer ...
written 29 days ago by Buffo460
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Comment: C: MiRNA orthologues between human and chick
... I would call them "conserved" more than orthologues, I THINK it is more appropriate. ...
written 4 weeks ago by Buffo460
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Comment: C: Reference guided assembly of contigs
... For a very close related species SPADES works even better and faster than IDBA_hybrid. ...
written 4 weeks ago by Buffo460
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Comment: C: Reference guided assembly of contigs
... spades.py --only-assembler --trusted-contigs trusted_contigs.fa -1 file_r1.fastq -2 file_r2.fastq -o spades_hybrid_assembly ...
written 4 weeks ago by Buffo460

Latest awards to Buffo

Scholar 7 weeks ago, created an answer that has been accepted. For A: How can I get FASTA if i have Names of proteins ?
Centurion 8 weeks ago, created 100 posts.
Scholar 5 months ago, created an answer that has been accepted. For A: How can I get FASTA if i have Names of proteins ?
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: How can I get FASTA if i have Names of proteins ?

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