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Withdrawn participant IDs in dataset/bulk data
- Permanently deleted user
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Imputing UKB genotypes with HRC
- Former User of DNAx Community_39
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We are analyzing the WES 500K files and when I remove variants for DP, allele balance, and low complexity it seems like 15-17% (both SNPs and indels) of variants on a chromosome are being removed. Does that seem like too much?
- Former User of DNAx Community_89
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How can I extract 10 random individuals from a selected cohort in UKB RAP ?
- Former User of DNAx Community_95
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How can I exclude with participants have specific genotype from my cohort using cohort browser?
- Permanently deleted user
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How to access patient diagnoses among subset for which OLINK proteomics data exists?
- Former User of DNAx Community_6
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Issue with GEL Imputation .bgi Indicies
- Former User of DNAx Community_51
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Extract record tables using the dx command line.
- Former User of DNAx Community_60
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We highlighted a potential issue with allele frequencies for multi-allelic variants in the UKBB WGS 200k data.
- Former User of DNAx Community_58
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Any advise on how to deal with missing data in the olink data?
- Former User of DNAx Community_11
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I having hard time using STATA 18 on Jupyter lab. Any suggestion on how I can do these ? Thank you
- Former User of DNAx Community_38
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How do I archive a folder? I know how to archive multiple files, but I want to archive all the files in one directory recursively.
- Former User of DNAx Community_100
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Extracting and saving a specific datafield for all participant in Jupyterlab,
- Former User of DNAx Community_59
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accessing the database through SQL Spark is not working
- Former User of DNAx Community_6
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Snapshots bigger than instance storage
- Permanently deleted user
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How to Access OMOP database of ukbiobank?
- Former User of DNAx Community_6
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My csv file is not downloading fully, what might be the possible cause.
- Former User of DNAx Community_38
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How can I extract AD, AF, DP information from ##FORMAT lines of snpEff.vcf file?
- Permanently deleted user
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Why there are so many mutations with a high percentage of unknown data in chromosome 6?
- Former User of DNAx Community_61
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WDL workflow and bash/R outputs in DNAnexus?
- Permanently deleted user
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Recommendations for understanding WES pVCF file data in detail
- Former User of DNAx Community_78
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Is there any dataset with only clinvar pathogenic variants information only?
- Former User of DNAx Community_6
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Is it possible to run Snakemake pipelines on DNAnexus? I'm trying to use DROP () but having many issues running it, any previous code example on Snakemake that works on DNAnexus?
- Former User of DNAx Community_100
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Questions/Error: ukb-rap-pheno-basic.ipynb
- Former User of DNAx Community_69
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Error when merging WGS plink files.
- Former User of DNAx Community_58
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I am trying to access accelerometry data. I would like to know how to use these datasets and are there any tutorials available for the analysis ?
- Former User of DNAx Community_6
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Many sample-level WGS gVCFs lack mitochondrial variant calls in UKB
- Former User of DNAx Community_7
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I'm trying to look for reports of a specific disease in a range of datasets. I used the cohort browser and then ran a Jupyter notebook with PySpark to get the data. ICD-10, -9, etc. works,but "Non-cancer illness code, self-reported" gives a Py4JJava error
- Former User of DNAx Community_20
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