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Dear Armando,
I have a ddRADseq dataset with about 70,000 SNPs. I ran GONE using the default parameters from the INPUT_PARAMETERS_FILE, and I double-checked to ensure that all the parameters are ap…
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Collecting pymummer
Using cached pymummer-0.11.0.tar.gz (8.2 kB)
Preparing metadata (setup.py) ... error
error: subprocess-exited-with-error
× python setup.py egg_info did not run succ…
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After preparing the required input, the pipeline can't seem to find the specified files or output directory. I don't see in the log files whether or not my sample file is recognized. I am hoping that…
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I was running the filter_rad() on a new dataset and got the following error
Filter genotyping threshold: 0.2
Number of individuals / strata / chrom / locus / SNP:
Before: 658 / 3 / 1 / 5478 /…
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when I change some pixels in a geotiff raster file and then want to save it (saving it on a regular base so not to lose any data), after a few changes -saves (with export - save as - format geotiff e…
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Hello all,
Thank you for building this tool and for your detailed documentation. While trying to run Step 2 with no secondary PLINK directory specified, I encountered the following error:
```
T…
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Hello
It work well when single trait is analyzed separately. However it fails when two traits are analyzed together using --rg.
Could you help me figure out it?
Thank you very much!
The detail…
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Hi,
I tried using `--genome` in PLINK to calculate IBD based on a selection of SNPs (in my case 44). Turns out, that in my data:
- 7 SNPs have haploid genotypes
- when merging GWAS data of the sa…
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Hello,
First, thank you so much for making this outstanding software available to the bioinformatics community.
I ran into this weird error from snps.from.file function:
```
> snps.mb.frombed_OU…
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For TG, the 7 SNPs should not yield a Nan value for 50kb collapsed SNPs