Platypus Users

Hi Andy, I am currently working on a genotyping setup that involves very large marsupial chromosomes

I also tried to install it through conda. It seems work but I could not locate the Platypus.py in the

Hello, I've been using Platypus as part of the Fast-GBS pipeline for 2 years, and it worked fine.

Hi, the --minPosterior threshold determines which variants are output to the VCS. Anything with PP

I don't think it is the problem because all of my files have unique names since they are all in

Hi, was there an answer found for this? I am having the same issue [bobbieshaban@spartan-snowy032

Hi Andy, I'm using Platypus version 0.8.1 for years with satisfaction and never got this error

Hey Tim - I also ran into this with my install and htslib. I was able to fix it by doing the

Hi, I am an researcher at Zarlab , UCLA. I ran your tool Platypus, for determining deletions in a

I have used the dbSNP as source VCF file but I didn't get ant "rsID". How can it be

Can you help me to solve the below mentioned bug. bose@bose-Precision-T1700:~/Downloads/Platypus_0.

Nils, You might be interested in the RNA-seq preprocessor for Platypus, Opposum, developed in Oxford

I have installed Platypus_0.8.1 but it was not working when running python Platypus.py --help. Here

I keep getting this error: Traceback (most recent call last): File "Platypus.py", line 9,

It appears to be an issue with the script? Similar issue with Ansible found on the internet: http://

Dear all, I'm pleased to announce that Octopus is back online, for good! We've made a number

Hi Tim, I have had exactly the same issue, did you obtain a resolution to this problem? On Thursday,

Dear Andy and all, Well the problem I have looks serious, because I tried running a very simple

Hi Andy, this is the log-file I get: 2017-10-05 10:50:01401 - INFO - Beginning variant calling 2017-

Hi, I'm not sure what SpeedSeq does, but any kind of recalibration is likely to change the output

Hi Nick, 1. Yes, this will turn off SNP detection in Platypus. In some cases this may affect the

Hi, I'm also struggling with Platypus installation. I tried to follow Sven's suggestions, but

The script will work with SNPs, indwells and MNPs, so everything that Platypus reports. Indels are of

Hi, We recently sequenced a cell line with a known BRAF V600E mutation with a variant allele fraction

Thank you Andy, that makes things clear! I will move to a 2-pass approach then. Just as a feature

Thank you very much Dr. Rimmer for information. I think, we have ample free space on server and don

Hi, I was testing Platypus on data generated using Illumina's TruSeq Amplicon Cancer Panel. I

Hi Matt, Can you send me a small example of the output? And the log file? With the options you set,

Hi Keren, This looks like a bug in the way Platypus generates the VCF output. The genotypes for the

I am trying to understand the algorithms behind Platypus. Can I know what is the name of the

Thanks, Andy! That makes sense. Best, Katie On Monday, April 3, 2017 at 5:25:11 AM UTC-7, Andy Rimmer