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Wsp transition #203

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alisha246 Nov 30, 2023
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18 changes: 17 additions & 1 deletion retrieval/ena-analysis.rst
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Expand Up @@ -71,4 +71,20 @@ If there are chromosomes in the assembly, they can be viewed through the assembl
The ‘Assembly Statistics’ shows all details of the assembly being viewed.

.. image:: images/assembly-statistics.png
:align: center
:align: center

View and Download Files
-----------------------

This section explains how to view and download assembly and sequence files from the ENA browser. This only applies to
publicly available data. The ‘View’ option displays and the ‘Download’ option downloads the files that are being
accessed. For example, the options shown in the navigation box below have the following functions:

- **XML** - Displays/downloads the file containing all the assembly attributes displayed in XML format.
- **WGS Set EMBL** - If an assembly contains contigs, downloads the assembly’s WGS contig set in embl (flat file)
format.
- **WGS Set FASTA** - If an assembly contains contigs, downloads the assembly’s WGS contig set in fasta format.
- **All Seq EMBL** - Downloads all sequences in the assembly including all contigs, scaffolds and chromosomes as
applicable in embl (flat file) format.
- **All Seq FASTA** - Downloads all sequences in the assembly including all contigs, scaffolds and chromosomes as
applicable in fasta format.
2 changes: 1 addition & 1 deletion submit/sequence.rst
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Expand Up @@ -70,7 +70,7 @@ Submission Options


There are two ways in which targeted sequences can be submitted: all targeted sequences can be submitted in the
`EMBL flat file format </fileprep/flat-file-example.html>`_.
`EMBL flat file format </en/latest/submit/fileprep/flat-file-example.html>`_.
Alternatively, for commonly submitted types of sequence there are checklists which can be used for submission instead.
In checklist-based submission, you provide a spreadsheet of pre-defined attributes for each sequence, and our pipeline
automatically creates flat files based on these.
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2 changes: 1 addition & 1 deletion update/metadata/interactive.rst
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Expand Up @@ -24,7 +24,7 @@ For samples, there may sometimes be good reason to add, remove, or edit the elem
- 1: `Study Edits`_
- 2: `Sample Edits`_
- 3: `Experiment And Run Edits`_
- 4: `Analysis Edits`
- 4: `Analysis Edits`_


Study Edits
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