Question: blastp download option with csv
0
gravatar for inspiresnehal
12 months ago by
inspiresnehal0 wrote:

hello

I am trying to run the blastp online with short peptide sequences. when I try to download the results in csv format , it doesnt have any headers . I tried looking for the info but couldnt find anywhere.

I was also wondering if we can change the output format in the online version like we can in the command line version .

Thanks Snehal

ADD COMMENTlink modified 12 months ago by mike-zx140 • written 12 months ago by inspiresnehal0
0
gravatar for mike-zx
12 months ago by
mike-zx140
mike-zx140 wrote:

Hello, if you are talking about the HitTable.csv file you are correct it comes with no headers, however if you download the hit table in .txt format you will get a file that has the description of the headers and the same information as the csv file:

# Fields: query acc.ver, subject acc.ver, % identity, alignment length, mismatches, gap opens, q. start, q. end, s. start, s. end, evalue, bit score, % positives, query/sbjct frames
# 41 hits found
Query_152189    S80564.1    99.310  145 1   0   1   145 59  493 8.82e-82    251 99.31   0/2

If you need the csv file still, you can add the corresponding headers with sed and only print the columns you need with awk. Don't hesitate asking if you need more help. I don't think there is a builtin option to format outputs in web BLAST.

ADD COMMENTlink modified 12 months ago • written 12 months ago by mike-zx140
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