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Former User of DNAx Community_13

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Latest activity by Former User of DNAx Community_13

  • Former User of DNAx Community_13 commented,

    Thank you for the answer @Ondrej Klempir? ! I am not working with any particular field, I directly using the genetic variants to conduct some downstream analyses with them. And what I would like to...

  • Former User of DNAx Community_13 created a post,

    Variants imputed or sequenced in BGEN file

    I am working with BGEN imputed files at Bulk/Imputation/UKB imputation from genotype. Is there any way to know if a given variant in the BGEN file has been imputed or directly sequenced? I am using...

    • Former User of DNAx Community_13
    • 2 followers
    • 2 comments
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  • Former User of DNAx Community_13 commented,

    Sorry for all the messages, another error that I am often getting when running bgen_index() is the following: Java stack trace:org.apache.spark.SparkException: Job aborted due to stage failure: Tas...

  • Former User of DNAx Community_13 commented,

    For the second error, first I get:"Server Connection ErrorA connection to the Jupyter server could not be established. JupyterLab will continue trying to reconnect. Check your network connection or...

  • Former User of DNAx Community_13 commented,

    Hi! That worked, thank you very much!?  However, I am still experiencing quite a few issues when trying to run index_bgen() (HAIL) using jupyterlab. First, 90% of the times I get the error "transpo...

  • Former User of DNAx Community_13 created a post,

    index_bgen in RAP using imputation files

    Hello!I am following the instructions provided at https://github.com/dnanexus/OpenBio/blob/master/hail_tutorial/BGEN_import.ipynb to try to use UKB bgen files with Hail. from pyspark.sql import Spa...

    • Former User of DNAx Community_13
    • 2 followers
    • 7 comments
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