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Hi,
I have seen most papers doing ATAC-Seq analysis run macs2 with the --nolambda option, including the hmmratac paper. Naively, it seems like this would overcall peaks/peak summits in generally op…
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**Pending completion of [Discovery](https://docs.google.com/document/d/1UHg56V6rpJn0DV-R9Gn98yUrxsQGG9934xuemTcKRAM/edit#heading=h.uphvkb668l8y). Draft available by October 12**
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Hi,
I have a contig-based genome assembly that I want to scaffold using LD information from a set of pool sequencing data. I have been thinking of experimenting with LDscaff, but so far have not be…
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Hi, there:
I found that the l**east significant P-value** of your example data mr_dat$**exp_df** is 4.2308e-09. Does this means that all SNPs included in exp_df must be genome-wide significant?
…
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Hi,
Thanks for the invaluable tools and tutorial resources you provided!
I am currently working with imputed data from the UK Biobank, and I have encountered a challenge regarding the storage si…
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In the current version all datasets are loaded on demand without any caching. However, most of the datasets could fit into the main memory.
see also https://kastnerkyle.github.io/posts/using-pytab…
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Hello,
I am trying to calculate a PRS-score, with PRSice2, on a case-control-cohort based on summary statistics from a larger GWAS-study. I have calculated principal components and want to use the fi…
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Dear developers,
When running mtCOJO I am facing an error I have problems to solve.
My code:
Accepted options:
--bfile /home/all_snps
--mtcojo-file /home/mtCOJO/mtcojo_summary_data.list.txt
…
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Hi,
I have a genotype data with only part of chromosome covered. I am wondering if there is way to calculate SNP-heritability based on the non-consecutive chromosomes?
Thanks,