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Is this deliberate? It seems to mean you can't read compressed files since it overrides the automatic compression detection.
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Hi Samuel S. Kim,
I have a question about the data of baseline LD annotations. I followed the instruction and downloaded the data from web source: https://data.broadinstitute.org/alkesgroup/LDSCORE…
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So I'm on step 2 of [Polyfun approach 3](https://github.com/omerwe/polyfun/wiki/1.-Computing-prior-causal-probabilities-with-PolyFun) and I'm getting the following error (despite having the `--allow-m…
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I noticed in the original S-LDSC that a `.results` file with the enrichment scores for each annotation is also produced. Is PolyFun also capable of producing this file (or something comparable)?
Th…
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Hi Omer,
So I finally got my Conda issues sorted out! Since then things have been running pretty smoothly, until I got to this step. I'm realizing it's because I haven't provided any plink referen…
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Dataset contains cell-types GABA11, GABA12 ..
```
(rkm916_default) -bash-4.2$ snakemake --use-conda -s cellect-ldsc.snakefile
Loading default config file: config-ldsc.yml
Building DAG of jo…
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> [Tue Oct 15 10:38:09 2019]
> Finished job 233.
> 67 of 434 steps (15%) done
>
> [Tue Oct 15 10:38:09 2019]
> rule compute_LD_scores:
> input: /scratch/rkm916/BMIcelltypes/CELLECT-LDSC/pre…
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Hi Bjarni,
It is possible to get some information on the HapMap 3 reference data used for the --only-hm3 flag? I'm not using rs as SNPs IDs, so I would appreciate information on the data source for …
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Hi, thank you sharing this great program! I am going through the depict example code but when running the script depict_partitionHeritability.sh I got the following error message:
After merging wit…
xztrr updated
5 years ago
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Just perhaps worthwhile to add to the wiki that the necessary PLINK-formatted genotype data for computing reference LD as mentioned in the example (`1000G.EUR.QC.1`) can be downloaded and extracted as…