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Revisions

  • add note that decontam is optional

    @martinghunt martinghunt committed Nov 7, 2023
    2a1cd62

  • add note on DSL1/2

    @martinghunt martinghunt committed May 26, 2023
    46e7018

  • update output files

    @martinghunt martinghunt committed May 26, 2023
    03e9316

  • add note that variant calls in VCF

    @martinghunt martinghunt committed Sep 22, 2022
    ce020fc

  • fix typo in command

    @martinghunt martinghunt committed Jun 15, 2022
    91561ed

  • tidy up

    @martinghunt martinghunt committed Jun 15, 2022
    ce31f6b

  • fix typos

    @martinghunt martinghunt committed Jun 15, 2022
    df48455

  • fix link

    @martinghunt martinghunt committed Jun 15, 2022
    be10804

  • fix links

    @martinghunt martinghunt committed Jun 15, 2022
    75794fc

  • Rewrite most of the docs, and add walkthroughs

    @martinghunt martinghunt committed Jun 15, 2022
    47b5f32

  • tweaks

    @martinghunt martinghunt committed Jun 14, 2022
    0ca8abb

  • update installation instructions

    @martinghunt martinghunt committed Jun 14, 2022
    ee420d4

  • add sql for remove contam

    @martinghunt martinghunt committed Mar 8, 2022
    58a8991

  • write qc and variant call sections

    @martinghunt martinghunt committed Mar 8, 2022
    b2f7d1f

  • start writing output files page

    @martinghunt martinghunt committed Mar 8, 2022
    97d2cde

  • Add mykrobe pipeline instructions

    @martinghunt martinghunt committed Nov 20, 2019
    445c1bc

  • update to reflect downloading refs is separate from container build

    @martinghunt martinghunt committed Nov 4, 2019
    f192764

  • more typos

    @martinghunt martinghunt committed Oct 30, 2019
    5767a8d

  • add note about MySQL reference ids

    @martinghunt martinghunt committed Oct 30, 2019
    78e485c

  • add link to preparing remove contam data page

    @martinghunt martinghunt committed Oct 30, 2019
    6be4225

  • typo fix

    @martinghunt martinghunt committed Oct 30, 2019
    f1b6fd6

  • First draft

    @martinghunt martinghunt committed Oct 30, 2019
    9d8cd35

  • Created Remove contamination reference data (markdown)

    @martinghunt martinghunt committed Oct 30, 2019
    aa4eb70

  • image.create no longer needed

    @martinghunt martinghunt committed Oct 30, 2019
    c68e09e

  • linebreak in command to stop sideways scrolling

    @martinghunt martinghunt committed Oct 30, 2019
    8f59946

  • Need to use full path to download script

    @martinghunt martinghunt committed Oct 30, 2019
    e041dc7

  • typo fix

    @martinghunt martinghunt committed Oct 30, 2019
    cfb3ee5

  • Update contam remove setup - the downloading is separate from the container build

    @martinghunt martinghunt committed Oct 30, 2019
    fe8c426

  • fix italics typo

    @martinghunt martinghunt committed Feb 6, 2019
    0daabbe

  • update singularity build commands; debootstrap required

    @martinghunt martinghunt committed Nov 26, 2018
    0773952