Moderator: Dan D
Dan D ♦ 6.0k
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Docendo discimus.
Posts by Dan D
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... It is, based on the domain in the user's email address. ...
written 3 days ago by
Dan D ♦ 6.0k
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... The error message you're seeing is unrelated to your use of the `glob` function.
This line:
cmd=['parsing_blast']
is equivalent to typing
parsing_blast
on the command line. There's apparently no executable by that name available.
Are you trying to asynchronously call the `parsing_bla ...
written 3 days ago by
Dan D ♦ 6.0k
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... ##Step 1:
Download and index the genome with samtools faidx:
samtools faidx [radish.fa]
## Step 2:
Extract the region of interest:
samtools faidx [radish.fa] [contig_name:start_pos-end_pos]
The result will be printed to STDOUT.
...
written 5 months ago by
Dan D ♦ 6.0k
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Comment:
C: regular expression on Notepad+++
... I can't help it, I'm compelled to answer the question anyway.
Find what: ^\s\d\s
Replace with:
To be clear: don't put anything in the "replace with" field. That should work if I'm understanding your query correctly. ...
written 5 months ago by
Dan D ♦ 6.0k
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Comment:
C: regular expression on Notepad+++
... Hello chenmengutd!
We believe that this post does not fit the main topic of this site.
This is not related to bioinformatics
For this reason we have closed your question. This allows us to keep the site focused
on the topics that the community can help with.
If you disagree please tell us why ...
written 5 months ago by
Dan D ♦ 6.0k
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... Excel from the 2010 edition onward can accomplish something like your figure pretty easily.
There's also [SigmaPlot][1], which is what I used before I became proficient with d3.js and matplotlib. This figure actually resembles a standard matplotlib product to me.
[Tableau][2] is great too, but p ...
written 5 months ago by
Dan D ♦ 6.0k
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... Assuming this is the case (which hopefully it is), which tool will help him do what he needs? Fill in the blank:
BB_________ ...
written 6 months ago by
Dan D ♦ 6.0k
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... I know from previous questions that a lot of us get roped into doing LIMS work, which sometimes directly involves bioinformatics and other times is just tangential. There are also situations where we need to make interfaces to existing tools.
Anyway, I don't see much out there for rendering labware ...
written 6 months ago by
Dan D ♦ 6.0k
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... Can you please `head` the converted FASTQ file so we can get a basic overview of its structure? ...
written 6 months ago by
Dan D ♦ 6.0k
3
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... In bash you need to use `-` to specify that the input is coming from a pipe. You should also add the `-S` parameter to specify that the input is SAM (or follow the suggestion of @swbarnes2 and output BAM from `view` instead):
samtools view -h -F 0x10 | samtools calmd -S - | samtools view -bS ...
written 6 months ago by
Dan D ♦ 6.0k
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