User: sharmatina189059

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Posts by sharmatina189059

<prev • 139 results • page 1 of 14 • next >
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Comment: C: How to compare two file and print matching?
... import pandas as pd climate_temp = pd.read_csv("/dataset") climate_precip = pd.read_csv("/susceptible") inner_merged = pd.merge(climate_temp, climate_precip, on = "Filename") inner_merged.head() I tried this and this works well. Thanks ...
written 4 days ago by sharmatina18905940
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Comment: C: How to compare two file and print matching?
... I have read this but in my case the solution given is not working. Please do let me know what else can be done? ...
written 4 days ago by sharmatina18905940
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Comment: C: How to compare two file and print matching?
... join -t $'\t' -1 1 -2 1 <(sort -t $'\t' -k1,1 susceptible) <(sort -t $'\t' -k1,1 dataset) This is not working in my case. ...
written 4 days ago by sharmatina18905940
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(Closed) How to compare two file and print matching?
... i have two files file 1 Genome_no. Organism_name Filename 1 Organism1 470.1359 2 Organism2 470.7416 3 Organism3 470.7433 4 Organism4 470.1550 5 Organism5 470.1551 and file2 Acinetobacter baumannii strain MRSN10372 470.7416 Acinetobacter baumannii strain MRSN11698 ...
perl sed awk written 4 days ago by sharmatina18905940 • updated 4 days ago by Pierre Lindenbaum133k
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Comment: C: how to unique a file row-wise?
... Thanks for the reply perl -MList::Util=uniq -alne 'print join " ", sort { $a <=> $b } uniq @F' out_new_prophecy > perl_out_prophecy This also works!! ...
written 6 days ago by sharmatina18905940
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Comment: C: how to unique a file row-wise?
... It is actually a frequency table I got it using Prophecy (Emboss module). I need to check the number of isolates in which these variations exist. That's why I want to make it sort so that I can read it easily. Can you please help? I could not understand how to make it unique row-wise? ...
written 6 days ago by sharmatina18905940
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how to unique a file row-wise?
... Hello all I have a input file like this: 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 786 0 0 19 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 787 0 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 786 0 0 0 ...
perl awk sed linux written 6 days ago by sharmatina18905940 • updated 6 days ago by dare_devil1.3k
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How to get variation data from MSA file generated using ClustalW for protein sequences?
... #!/usr/bin/env python3 (conserved amino acid position) from Bio import AlignIO import sys #data = np.genfromtxt("/home/tina/bin/MDR_aminoglycoside.csv", delimiter=",") aln = "/home/tina/cd-hit/core_header_WP_000209090.1/seqret_out_WP_000209090.1.aln" print("Alignment le ...
variation clustalw msa written 11 days ago by sharmatina18905940 • updated 1 day ago by Biostar ♦♦ 20
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How to read a multiple sequence alignment file?
... Dear all I have a example file like >Sequence1 GARFIELDTHELASTFATCAT >Sequence2 GARFIELDTHEFASTCAT >Sequence3 GARFIELDTHEVERYFASTCAT >Sequence4 THEFATCAT >Sequence5 GARFIELDTHEVASTCAT I need to do multiple sequnece alignment and count number o ...
multiple sequence alignment written 14 days ago by sharmatina18905940 • updated 14 days ago by manishaB0
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Comment: C: can we retrieve protein sequences from the clusters of CD-hit?
... I am running this command : cd-hit -i merge_all_788_proteins.faa -o out_788_cd-hit50 -c 0.5 -n 2 -M 0 This gives me a fasta file having all the representative sequences (longest one) and `.clust` file having all the clusters file. I need to get all protein sequences from clusters0 or cluster ...
written 14 days ago by sharmatina18905940 • updated 14 days ago by _r_am32k

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