Moderator: zx8754

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zx87549.6k
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"If you torture the data long enough, it will confess." - Ronald Coase

Posts by zx8754

<prev • 1,137 results • page 1 of 114 • next >
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Comment: C: data format for ggupset
... Provide example data. ...
written 22 hours ago by zx87549.6k
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Comment: C: File processing in linux
... - **awk** https://unix.stackexchange.com/q/418058/16560 - **R** https://stackoverflow.com/q/13773770/680068 ...
written 6 days ago by zx87549.6k
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Comment: C: is it possible to know individual genotype(alleles) by SNP in plink?
... I think they need `--recode transpose`. ...
written 7 days ago by zx87549.6k
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Comment: C: How to calculate edit distance for nucleotide sequences
... Related post: - https://www.biostars.org/p/102353/ ...
written 13 days ago by zx87549.6k
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Answer: A: how to make individual list file when extracting on plink?
... *ind_list.txt* should have 2 columns FID and IID (FamilyID, IndividualID). https://www.cog-genomics.org/plink/1.9/filter > **--keep** accepts a space/tab-delimited text file with family IDs in the first column and within-family IDs in the second column, and removes all unlisted samples from the ...
written 13 days ago by zx87549.6k
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Comment: C: How to remove NAs in multiple CSV files in a folder
... OK, convinced :) updated the post, thank you. ...
written 19 days ago by zx87549.6k
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Answer: A: Problem with "sleuth_prep" - 'kal_dirs' (sample_to_covariates) must be a data.f
... Error is clear *kal_dirs* must be a data.frame with "sample" and "path" columns, maybe try: kal_dirs_fixed <- data.frame(sample = names(kal_dirs), path = kal_dirs) so <- sleuth_prep(kal_dirs_fixed, s2c, ~ condition, target_mapping = t2g) > **sample_to_covariates** a data.fram ...
written 19 days ago by zx87549.6k
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Comment: C: How to remove NAs in multiple CSV files in a folder
... By far I am not a *regex* expert, but `"*.csv"` works fine for me. In any case, OP can test and amend as needed. ...
written 19 days ago by zx87549.6k
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Answer: A: How to remove NAs in multiple CSV files in a folder
... Probably this job more suitable for **bash**, but here is using **R**: find all files, keep only complete cases (remove any row that has NA), then output with renamed filename. library(data.table) for(i in list.files("path/to/files", pattern = ".*\\.csv", full.names = TRUE)){ d & ...
written 19 days ago by zx87549.6k
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Comment: C: Question : RVtest VT output column and SKATO output column definitions
... See related post and GitHub issue: - https://www.biostars.org/p/279635/ - https://github.com/zhanxw/rvtests/issues/50 ...
written 21 days ago by zx87549.6k

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Scholar 6 days ago, created an answer that has been accepted. For C: How to calculate r-squared with Haploview from different sources?
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Scholar 27 days ago, created an answer that has been accepted. For C: How to calculate r-squared with Haploview from different sources?
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