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Questions - blast

Sort table rows by column values in R

I have a classic output of the BLAST tool that it is like the table below. To make the table easier to read, I reduced the number of columns. query subject startinsubject endinsubject 1 SRR 50...
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marduk

r

dataframe

blast

Votes: 0

Answers: 2

Latest Answer

This is an ifelse option. You can use the following code: df <- data.frame(query = c(1,1), subject = c("SRR", "SRR"), startinsubject = c(50, 50...
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Quinten

NCBI Blast API use QuickBLASTP program

I'm using NCBI Blast's web API. In their browser-based Blast search, they offer a program called QuickBLASTP which is immensely faster than the regular blastp. How can I use this program inside of the...
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Ayush

python

blast

ncbi

Votes: 0

Answers: 0

USAGE message in BLAST search with python

I am trying to filter a blast web search through the taxids of Bacteria and Achaea, this is my code: from Bio.Blast.Applications import NcbiblastnCommandline blastn_command = NcbiblastnCommandline(que...
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Barbara Souza

python

bioinformatics

biopython

blast

Votes: 0

Answers: 1

Latest Answer

TLDR Double quote the entrez_query parameter (same as the outfmt). The error is most probably caused by the fact, that the entrez_query parameter contain spaces and is not double quoted. As can be see...
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Marek Schwarz

gnuplot plot scientific notation (exponential value on x-axis)

I'm new using gnuplot, today I learned a lot on stackoverflow for a problem that I had with a plot, but now for my research I need to do another one like the following image: The data are of the same...
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Chiara

plot

format

gnuplot

scientific-notation

blast

Votes: 0

Answers: 1

Latest Answer

If you want to plot values which span many order of magnitudes you either plot it on logarithmic scale or take log10() of your values and plot them in linear scale. From your description without code ...
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theozh

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