User: kloetzl

gravatar for kloetzl
kloetzl1.1k
Reputation:
1,090
Status:
Trusted
Location:
European Union
Website:
http://kloetzl.info/
Twitter:
kloetzl
Scholar ID:
Google Scholar Page
Last seen:
1 week, 1 day ago
Joined:
5 years, 3 months ago
Email:
k******@evolbio.mpg.de

Posts by kloetzl

<prev • 131 results • page 1 of 14 • next >
4
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3
answers
324
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3
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Answer: A: Help with awk loop
... Don't prefix any variables in awk with `$` unless you want the value of the column. BEGIN{ FS=";"; OFS=";"; print "Average;Missing" } NR>1{ sum=0; c=0; for(i=1;i<=NF;i++) if($i != "--") { sum += $i; c++; } print sum/c, ...
written 8 months ago by kloetzl1.1k
2
votes
1
answer
289
views
1
answers
Answer: A: Fasta length count format
... This should do it: awk '/^>/{if (l!="") print l; print; l=0; next}{l+=length($0)}END{print l}' seq.fasta | paste - - ...
written 9 months ago by kloetzl1.1k
1
vote
2
answers
1.0k
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2
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Comment: C: Linearize fasta files
... You can easily tell that the patch was worth it by comparing the user times of seqtk before and after. \o/ ...
written 15 months ago by kloetzl1.1k
2
votes
1
answer
330
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1
answers
Comment: C: How to compare few DNA multi-alignment algorithms?
... Take a look at the “alignathon”. ...
written 16 months ago by kloetzl1.1k
0
votes
1
answer
1.3k
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1
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Answer: A: Convert MAF to FASTA
... I am not sure what you want to achieve, but this extracts the alignment and produces fasta-like output: `cat foo.maf | awk '/^s/{print ">" $2 "\n" $7}'`. ...
written 17 months ago by kloetzl1.1k
3
votes
3
answers
535
views
3
answers
Answer: A: Organizing tools/ software
... Personally, I try to avoid `make install` from any software like the plague. Usually, I forget about the software so it just ends up filling my disk space and leading to other issues (not receiving any updates etc.). Instead these days I have a directory with a bunch of 3rd party software source fil ...
written 20 months ago by kloetzl1.1k
0
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0
answers
466
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0
answers
Comment: C: fails to configure
... try `autoreconf -fi -Im4` ...
written 24 months ago by kloetzl1.1k
1
vote
4
answers
511
views
4
answers
Answer: A: Join multiple sequence lines in to one.
... cat seq.txt| awk 'BEGIN{c=1}!/\[/{if(NF){n[c]=$1;s[c]=s[c] $2;c++}}/\[/{c=1}END{for( i in n){print n[i], s[i]}}' ...
written 2.0 years ago by kloetzl1.1k
0
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0
answers
551
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0
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Comment: C: Randomising the content of a site in a nucleotide alignment without altering com
... You might want to shuffle the columns or nucleotides using the [Fisher-Yates Algorithm](https://en.wikipedia.org/wiki/Fisher%E2%80%93Yates_shuffle). ...
written 2.1 years ago by kloetzl1.1k
1
vote
3
answers
1.1k
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Comment: C: Building bioinformatics tools in Ubuntu 17.10
... Why are you building things from source? Ubuntu comes with plenty of tools available via `apt`, including blast and bowtie. ...
written 2.2 years ago by kloetzl1.1k

Latest awards to kloetzl

Scholar 8 months ago, created an answer that has been accepted. For A: How to convert MUMmer output to SAM, GFF, or any other common format
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: FASTA file of fixed length
Appreciated 9 months ago, created a post with more than 5 votes. For A: FASTA file of fixed length
Scholar 9 months ago, created an answer that has been accepted. For A: Convert multiple-sequence fasta file to single long sequence
Guru 16 months ago, received more than 100 upvotes.
Scholar 20 months ago, created an answer that has been accepted. For A: Convert multiple-sequence fasta file to single long sequence
Teacher 20 months ago, created an answer with at least 3 up-votes. For A: Convert multiple-sequence fasta file to single long sequence
Scholar 2.0 years ago, created an answer that has been accepted. For A: Convert multiple-sequence fasta file to single long sequence
Scholar 2.2 years ago, created an answer that has been accepted. For A: Convert multiple-sequence fasta file to single long sequence
Teacher 2.2 years ago, created an answer with at least 3 up-votes. For A: Convert multiple-sequence fasta file to single long sequence
Scholar 2.2 years ago, created an answer that has been accepted. For A: Convert multiple-sequence fasta file to single long sequence
Teacher 2.2 years ago, created an answer with at least 3 up-votes. For A: Convert multiple-sequence fasta file to single long sequence
Teacher 2.3 years ago, created an answer with at least 3 up-votes. For A: Convert multiple-sequence fasta file to single long sequence
Scholar 2.4 years ago, created an answer that has been accepted. For A: Convert multiple-sequence fasta file to single long sequence
Centurion 2.4 years ago, created 100 posts.
Scholar 2.6 years ago, created an answer that has been accepted. For A: Convert multiple-sequence fasta file to single long sequence
Teacher 2.9 years ago, created an answer with at least 3 up-votes. For A: Convert multiple-sequence fasta file to single long sequence
Teacher 3.5 years ago, created an answer with at least 3 up-votes. For A: Convert multiple-sequence fasta file to single long sequence
Commentator 4.1 years ago, created a comment with at least 3 up-votes. For C: Making a mac book Bioinfo ready (El Capitan)
Teacher 4.1 years ago, created an answer with at least 3 up-votes. For A: Convert multiple-sequence fasta file to single long sequence
Scholar 4.1 years ago, created an answer that has been accepted. For A: Convert multiple-sequence fasta file to single long sequence
Teacher 4.1 years ago, created an answer with at least 3 up-votes. For A: Convert multiple-sequence fasta file to single long sequence
Scholar 4.1 years ago, created an answer that has been accepted. For A: Convert multiple-sequence fasta file to single long sequence
Scholar 4.2 years ago, created an answer that has been accepted. For A: Convert multiple-sequence fasta file to single long sequence
Supporter 4.2 years ago, voted at least 25 times.

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