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Hi there,
Thanks for a great tool! I've run all the test examples successfully and am now working on getting this to run on my own data set.
In preparing the input data for impute_runner.py, I n…
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After upgrading to version 2.5.7, I found that the latest version of lithops is not uploaded to the VPC (the old version remains). I tried deleting the VPC to create a new one. In this case, the litho…
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Hi all,
I've been working with find_ibd() to extract IBD segments from the tree sequence and it works great. However, I noticed that the function splits longer IBD segments, producing an overrepre…
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2021-11-13T06:35:32.923850+08:00 INFO tantivy_server::index::add - Commit succeed, docstamp at 673641
![Untitled](https://user-images.githubusercontent.com/36031579/141563909-6a059fa8-ca67-4ab2-956…
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During the call A.W. brought up an idea that sounds reasonable -- comparing the calculated relatedness (kinship) against the actual simulated kinship based on the ibd segments ped-sim simulates, not j…
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Hi,
I seem to be having a lot of trouble getting this to run, example command with example input and output files might help with troubleshooting. Would this be possible? Thank you.
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Hi there,
In the wiki about Blockstream Satellite it says: "Streams 2 and 3 operate with approximately 70 kbps each. For Stream 2, this bitrate is enough to cycle over 144 blocks at least three tim…
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when hap-ibd does not detect any ibd segments, it outputs an empty .ibd.gz file.
Currently seg2kin/read_ibd() dies on empty files:
```
hap-ibd/GBR-gsa37-5GHS-er_0.2-ms_0-hom_0.out.ibd.gz
Error: …
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Hi! First off, thank you for this awesome tool.
My question regards if there is a way to have hap-ibd output IBD0 (maybe called IBS0) segments? ie. segments where there were no shared alleles? Plea…
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Hello I'm trying to run the parameter estimation. It only seems to run if all 6 args are supplied and not only using 4 as per the usage instructions. (Usage: python parameter_estimation , or\\ pyth…