Assembly Release QA Steps: Difference between revisions

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===<span style="color:blue">Assembly notes===
===<span style="color:blue">Assembly Checklist===
</span>
</span>
Assemblies/sequences, from various organizations, are submitted to the mother ship [https://www.ncbi.nlm.nih.gov/genbank/ GenBank].<br>
Those assemblies [https://www.ncbi.nlm.nih.gov/assembly/help/anomnotrefseq/ might be included in RefSeq if criteria are met].
NOTE - maybe we should move this section to a QA step!
:RefSeq assemblies:
::use accession ID: '''GCF'''_000002315.4 (e.g., galGal5)
::are delivered '''with''' chrMt (if they exisit)
::are delivered with NCBI gene predictions
:Genbank assemblies:
::use accession ID: '''GCA'''_000001305.2
::delivered '''without''' a chrMt.
::do '''not''' have gene predictions.
For the UCSC Genome Browser, it is preferable to use RefSeq assemblies (in part due to 'more data').
This is a "learn as we go" direction; historically GeneBank was preferred.
Helpful article: [http://www.nature.com/nrg/journal/v13/n5/full/nrg3174.html Nature, 2012 A beginner's guide to eukaryotic genome annotation]


[https://docs.google.com/a/ucsc.edu/spreadsheets/d/1DwtQRe-YXEOkcvDIpcTeU2z8hxMw9ylOyMYZum0n3_o/edit?usp=sharing Assembly QA Google Spreadsheet Checklist Template]
[https://docs.google.com/a/ucsc.edu/spreadsheets/d/1DwtQRe-YXEOkcvDIpcTeU2z8hxMw9ylOyMYZum0n3_o/edit?usp=sharing Assembly QA Google Spreadsheet Checklist Template]

Revision as of 19:02, 25 October 2016

Welcome to the Assembly Release Guide 😀

Home: Assembly_Release_QA_Steps
  1. Assembly QA Part 1: DEV Steps
  2. Assembly QA Part 2: BETA Steps
  3. Assembly QA Part 3: RR Steps
  4. Assembly QA Part 4: Post Release Steps

Page created Fall. 2016 by Cath, Jairo, and ChrisV.
This page is currently a draft in progress.
For now, use Releasing_an_assembly instead.


Introduction

When a developer is ready for a new assembly to be released, the QA team (usually an individual of) will QA and release the assembly. This wiki section exists as a guide for the assembly QA and release process.

There are two types of assemblies that the QA team will process:

  1. New species
  2. New version for existing species


Change happens

Collaboration rocks. Keep me updated!
Editing this wiki will bring gaggles of glittery giggling unicorn-riding leprechauns to you, and they will improvise a dope rap about you that would make Snoop Dog jelly.


Assembly Checklist

Assembly QA Google Spreadsheet Checklist Template This Gspreadsheet corresponds to this Assembly Release Guide.


🔵 Ready to get started? Let's go to Assembly QA Part 1: DEV Steps

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