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Variants imputed or sequenced in BGEN file
- Former User of DNAx Community_13
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best fields for blood draw time stamps for proteomics and metabolomics?
- Former User of DNAx Community_6
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ttyd vs. cloud station. What is the main difference?
- Former User of DNAx Community_20
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Issue running bolt lmm
- Former User of DNAx Community_6
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Mismatch in Non-cancer illness code, self-reported (field ID 20002) and Non-cancer illness year/age first occurred (field ID 87)
- Former User of DNAx Community_33
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query cram files and collect EIDs
- Former User of DNAx Community_14
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Different DNAnexus URLs
- Permanently deleted user
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How can I find the common variants in my VCF files?
- Permanently deleted user
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CalledProcessError: Command '['/opt/notebooks/bgen.tgz/build/apps/bgenix', '-g', 'imputed/ukb21008_c1_b0_v1.bgen', '-incl-rsids', 'rs74045046']' returned non-zero exit status 255.
- Former User of DNAx Community_21
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File Storage Pricing
- Former User of DNAx Community_10
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index_bgen in RAP using imputation files
- Former User of DNAx Community_13
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How should I get allele frequencies for a specific cohort as per the WGS on the UKB RAP?
- Former User of DNAx Community_29
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Does anyone know how to access to returned data (i.e. UKB urban morphometric platform)? as a student researcher accessing all data via RAP
- Former User of DNAx Community_12
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Where can I find an updated Instance Rate Card?
- Former User of DNAx Community_10
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Where is INFO score information of the GEL imputed data? Why is variant filtering by INFO missing from the "End-to-end GWAS PheWAS" on ischemic heart disease documentation?
- Former User of DNAx Community_22
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Burden test from regenie in UKB WES data; the result does not contain Alleles or BETA and SE
- Former User of DNAx Community_21
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Has a pQTL analysis been conducted, and are the results, encompassing all variants (imputed, WES, or WGS), available for 1,500 proteins? Can REGENIE be used with WES/WGS data, and what specific considerations should be taken into account? Thanks
- Former User of DNAx Community_26
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I am creating a new workflow from scratch with my own custom apps. How can I have 1 central version of this workflow without needed to copy it to directories where the data is located? I want this workflow to be private to my project.
- Former User of DNAx Community_27
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Anyone know of a good workflow/tools to look at trisonomy in the 500K cohort? I don't have much experience with CNVs so beginner level explanations would be much appreciated, thanks!
- Former User of DNAx Community_16
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Saige null model generation giving error when trying to do on the complete dataset
- Former User of DNAx Community_6
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Polite inquiry about how to efficiently analyze the huge raw data of accelerometry on RAP?
- Former User of DNAx Community_75
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Efficiently extract singletons from WGS data on UKB-RAP
- Former User of DNAx Community_24
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Results of fewer SNPs total after using PJ Greer's scripts for Regenie using Plink genotype calls and final WES.
- Former User of DNAx Community_33
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how can I define a cohort without using the cohort browser?
- Former User of DNAx Community_94
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When I create a notebook in JupyterLab from the DNAnexus tab (project storage), I can't open it. Message says its a protected project. Any suggestions? Do I have too always use dx download then?
- Former User of DNAx Community_97
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Is there a map for which regions are in each 500k Whole EXOME Sequencing final release pVCF (23157) block and for the alternative gnoMAD pVCF (24068)?
- Former User of DNAx Community_94
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How to skip downloading files that already exist with dx download?
- Former User of DNAx Community_55
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Data dispensal/refresh temporarily unavailable
- Chai Fungtammasan
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Availability of pre-computed relatedness information?
- Permanently deleted user
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Assistance with LMM-BOLT through the Swiss Army Knife platform: Assertion `CompressedSNPBlocks==1' failed.
- Former User of DNAx Community_25
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