-
```
Hi there,
I am wondering if it is possible to also calculate Fst.
Given that you can successfully infer Pi and theta, i think you should be able
to infer Fst, because it needs only to know the…
-
Hi,
I will love to use this tool for my analysis, till now I have been using Popoolation2. So I have sync files for my populations. I wanted to know the frequency table of alleles, is it a SYNC file …
-
Hello,
I have HiSeq data from some yeast experimental populations and I would like to compare population parameters between populations (samples). For example, I would like to estimate genetic divers…
-
```
Fucked entry [mpileup] 2 samples in 2 input files at
/v4d3/zev/tools/popoolation2/Modules/Pileup.pm line 50, line 3.
```
Original issue reported on code.google.com by `jewb...@gmail.com` on…
-
Would it be possible to have the max read depth be a percentile? For example, set it to 0.98 to exclude reads with depth in the top 2% highest coverage. Perhaps, if the value passed to the parameter i…
-
```
Dear Robert,
I have some issues using snp-frequency-diff.pl, which exits unexpectedly, with
the following message:
Illegal division by zero at
/home/p254319/bin/popoolation2/snp-frequency-diff…
-
```
Hi
What steps will reproduce the problem?
I am trying to generate the synchronized files with the two options which are
described in the manual (java and perl), I am expecting two columns with…
-
```
Hi,
A problem occured sometimes when converting mpileup to sync format of
popoolation:
perl mpileup2sync.pl --input Input.mpileup --output Output.sync --fastq-type
'sanger'
The error given is:
…
-
```
What steps will reproduce the problem?
1. creating mpileup as per directions in tutorial but using my own sequence data
2. java -Xmx4g -jar ~/popoolation2/mpileup2sync.jar --fastq-type illumina
-…
-
```
Hi
I've been runnung fst-sliding with this options : --suppress-noninformative
--min-count 1 --min-coverage 1 --max-coverage 10000 --min-covered-fraction 1
--window-size 1 --step-size 1 --pool-…