User: kloetzl
kloetzl • 1.1k
- Reputation:
- 1,090
- Status:
- Trusted
- Location:
- European Union
- Website:
- http://kloetzl.info/
- Twitter:
- kloetzl
- Scholar ID:
- Google Scholar Page
- Last seen:
- 1 month, 3 weeks ago
- Joined:
- 5 years, 8 months ago
- Email:
- k******@evolbio.mpg.de
Posts by kloetzl
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4
votes
3
answers
439
views
3
answers
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 12 months ago by
kloetzl • 1.1k
2
votes
1
answer
323
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 14 months ago by
kloetzl • 1.1k
1
vote
2
answers
1.4k
views
2
answers
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 20 months ago by
kloetzl • 1.1k
2
votes
1
answer
382
views
1
answers
... Take a look at the “alignathon”. ...
written 20 months ago by
kloetzl • 1.1k
0
votes
1
answer
1.6k
views
1
answers
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 22 months ago by
kloetzl • 1.1k
3
votes
3
answers
577
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 2.1 years ago by
kloetzl • 1.1k
0
votes
0
answers
527
views
0
answers
Comment:
C: fails to configure
... try `autoreconf -fi -Im4` ...
written 2.4 years ago by
kloetzl • 1.1k
1
vote
4
answers
550
views
4
answers
... 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 2.4 years ago by
kloetzl • 1.1k
0
votes
0
answers
630
views
0
answers
... 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 2.5 years ago by
kloetzl • 1.1k
1
vote
3
answers
1.2k
views
3
answers
... Why are you building things from source? Ubuntu comes with plenty of tools available via `apt`, including blast and bowtie. ...
written 2.5 years ago by
kloetzl • 1.1k
Latest awards to kloetzl
Scholar
12 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
12 months ago,
created an answer with at least 3 up-votes.
For A: FASTA file of fixed length
Scholar
14 months ago,
created an answer that has been accepted.
For A: Convert multiple-sequence fasta file to single long sequence
Guru
20 months ago,
received more than 100 upvotes.
Scholar
2.1 years ago,
created an answer that has been accepted.
For A: Convert multiple-sequence fasta file to single long sequence
Teacher
2.1 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
Scholar
2.6 years ago,
created an answer that has been accepted.
For A: Convert multiple-sequence fasta file to single long sequence
Teacher
2.6 years ago,
created an answer with at least 3 up-votes.
For A: Convert multiple-sequence fasta file to single long sequence
Scholar
2.6 years ago,
created an answer that has been accepted.
For A: Convert multiple-sequence fasta file to single long sequence
Teacher
2.6 years ago,
created an answer with at least 3 up-votes.
For A: Convert multiple-sequence fasta file to single long sequence
Teacher
2.6 years ago,
created an answer with at least 3 up-votes.
For A: Convert multiple-sequence fasta file to single long sequence
Scholar
2.7 years ago,
created an answer that has been accepted.
For A: Convert multiple-sequence fasta file to single long sequence
Centurion
2.8 years ago,
created 100 posts.
Scholar
3.0 years ago,
created an answer that has been accepted.
For A: Convert multiple-sequence fasta file to single long sequence
Teacher
3.3 years ago,
created an answer with at least 3 up-votes.
For A: Convert multiple-sequence fasta file to single long sequence
Teacher
3.8 years ago,
created an answer with at least 3 up-votes.
For A: Convert multiple-sequence fasta file to single long sequence
Commentator
4.5 years ago,
created a comment with at least 3 up-votes.
For C: Making a mac book Bioinfo ready (El Capitan)
Teacher
4.5 years ago,
created an answer with at least 3 up-votes.
For A: Convert multiple-sequence fasta file to single long sequence
Scholar
4.5 years ago,
created an answer that has been accepted.
For A: Convert multiple-sequence fasta file to single long sequence
Teacher
4.5 years ago,
created an answer with at least 3 up-votes.
For A: Convert multiple-sequence fasta file to single long sequence
Scholar
4.5 years ago,
created an answer that has been accepted.
For A: Convert multiple-sequence fasta file to single long sequence
Scholar
4.5 years ago,
created an answer that has been accepted.
For A: Convert multiple-sequence fasta file to single long sequence
Supporter
4.5 years ago,
voted at least 25 times.
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