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Hi,
I noticed the file in test folder `chr20.b37.gmap.gz` is the same as that supplied by [beagle](http://bochet.gcc.biostat.washington.edu/beagle/genetic_maps/). But this is different that what you…
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Hi all, I am trying to simulate a family data by sim1000G. My genotype input is the UK Biobank genotype which is in binary files. Then I convert it to vcf file (not vcf.gz). Everything works fine exce…
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The Glycinemine report for a GWAS QTL paper only presents the GWAS QTL name used in the paper. Example: https://mines.legumeinfo.org/glycinemine/report.do?id=305000008&trail=%7c305000008. It does no…
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For example:
```python
import stdpopsim
import numpy as np
# simulate first 20Mb of chr22
for mapname in ["HapMapII_GRCh37", "HapMapII_GRCh38"]:
sp = stdpopsim.get_species("HomSap")
…
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We've seen many examples of trying to model and do things with the functional and structural connectomes separately. How much overlap is there in the information we can glean from the two types, and h…
ghost updated
9 years ago
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I'm trying to phase a vcf with 983 exome samples.
The command I ran -
```
/mnt/exome/Softwares/shapeit4/bin/shapeit4.2 --input MOD_hg19.vcf.gz --map /mnt/exome/Softwares/shapeit4/maps/chr"$chr"…
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Hi, I use allmaps to scaffold the genome based on the maker. But only 78% of contigs were scaffolded to chromosomes. I want to scaffold the remaining contigs that are not scaffolded to the chromosomes…
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Hi,
I've been trying to run CLAPPER, but I get an error that I cannot figure out how to solve.
"Thre are more than one markers in the same position in filename.tped! Every marker must have a uniqu…
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Revision: What ever version it is now, although I know this is a very old bug/feature, as I remember coming across this when we were testing the alt maps (efficiency/donut etc), and so has most likely…
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Building CXX object src/CMakeFiles/raxml_module.dir/CommandLineParser.cpp.o
make[2]: *** [src/CMakeFiles/raxml_module.dir/build.make:76: src/CMakeFiles/raxml_module.dir/AncestralStates.cpp.o] Error…