From fe8129b37d8b6787920a21f9961316747b62fb30 Mon Sep 17 00:00:00 2001 From: Pjotr Prins Date: Sat, 18 Jul 2020 09:28:03 +0100 Subject: Updating stylesheets and about page after receiving feedback. --- doc/web/about.html | 169 +++++++++++++++++++++++++++++++---------------------- 1 file changed, 100 insertions(+), 69 deletions(-) (limited to 'doc/web/about.html') diff --git a/doc/web/about.html b/doc/web/about.html index 9b16c92..dfd4252 100644 --- a/doc/web/about.html +++ b/doc/web/about.html @@ -3,7 +3,7 @@ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd"> - + About/FAQ @@ -161,6 +161,19 @@ .footdef { margin-bottom: 1em; } .figure { padding: 1em; } .figure p { text-align: center; } + .equation-container { + display: table; + text-align: center; + width: 100%; + } + .equation { + vertical-align: middle; + } + .equation-label { + display: table-cell; + text-align: right; + vertical-align: middle; + } .inlinetask { padding: 10px; border: 2px solid gray; @@ -185,7 +198,7 @@ @licstart The following is the entire license notice for the JavaScript code in this tag. -Copyright (C) 2012-2018 Free Software Foundation, Inc. +Copyright (C) 2012-2020 Free Software Foundation, Inc. The JavaScript code in this tag is free software: you can redistribute it and/or modify it under the terms of the GNU @@ -234,29 +247,30 @@ for the JavaScript code in this tag.

Table of Contents

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1 What is the 'public sequence resource' about?

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+

1 What is the 'public sequence resource' about?

The public sequence resource aims to provide a generic and useful @@ -267,8 +281,8 @@ sequence comparison and protein prediction.

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2 Who created the public sequence resource?

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2 Who created the public sequence resource?

The public sequence resource is an initiative by bioinformatics and @@ -289,14 +303,17 @@ wrangling experts. Thank you everyone!

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3 How does the public sequence resource compare to other data resources?

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+

3 How does the public sequence resource compare to other data resources?

The short version is that we use state-of-the-art practices in bioinformatics using agile methods. Unlike the resources from large institutes we can improve things on a dime and anyone can contribute -to building out this resource! +to building out this resource! Sequences from GenBank, EBI/ENA and +others are regularly added to PubSeq. We encourage people to everyone +to submit on PubSeq because of its superior live tooling and metadata +support (see the next question).

@@ -305,13 +322,13 @@ Importantly: all data is published under either the -

4 Why should I upload my data here?

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5 Why should I not upload by data here?

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+

5 Why should I not upload by data here?

Funny question. There are only good reasons to upload your data here @@ -365,8 +382,8 @@ for bulk uploads!

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6 How does the public sequence resource work?

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6 How does the public sequence resource work?

On uploading a sequence with metadata it will automatically be @@ -377,8 +394,8 @@ using workflows from the High Performance Open Biology Lab defined

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7 Who uses the public sequence resource?

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+

7 Who uses the public sequence resource?

The Swiss Institute of Bioinformatics has included this data in @@ -390,16 +407,29 @@ The Pantograph viewer uses PubSeq

-UTHSC and ORNL use COVID-19 PubSeq data for protein prediction and -drug development. +UTHSC (USA), ESR (New Zealand) and ORNL (USA) use COVID-19 PubSeq data +for monitoring, protein prediction and drug development.

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8 Is this about open data?

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8 How can I contribute?

+You can contribute by submitting sequences, updating metadata, submit +issues on our issue tracker, and more importantly add functionality. +See 'How do I change the source code' below. Read through our online +documentation at http://covid19.genenetwork.org/blog as a starting +point. +

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+ +
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9 Is this about open data?

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+

All data is published under a Creative Commons 4.0 attribution license (CC-BY-4.0). You can download the raw and published (GFA/RDF/FASTA) data and store it for further processing. @@ -407,9 +437,9 @@ data and store it for further processing.

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9 Is this about free software?

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10 Is this about free software?

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Absolutely. Free software allows for fully reproducible pipelines. You can take our workflows and data and run it elsewhere! @@ -417,9 +447,9 @@ can take our workflows and data and run it elsewhere!

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10 How do I upload raw data?

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11 How do I upload raw data?

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We are preparing raw sequence data pipelines (fastq and BAM). The reason is that we want the best data possible for downstream analysis @@ -433,27 +463,28 @@ assembly variations into consideration. This is all work in progress.

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11 How do I change metadata?

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12 How do I change metadata?

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See the http://covid19.genenetwork.org/blog!

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12 How do I change the work flows?

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13 How do I change the work flows?

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-See the http://covid19.genenetwork.org/blog! +Workflows are on github and can be modified. See also the BLOG +http://covid19.genenetwork.org/blog on workflows.

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13 How do I change the source code?

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14 How do I change the source code?

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Go to our source code repositories, fork/clone the repository, change something and submit a pull request (PR). That easy! Check out how @@ -462,9 +493,9 @@ many PRs we already merged.

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14 Should I choose CC-BY or CC0?

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15 Should I choose CC-BY or CC0?

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Restrictive data licenses are hampering data sharing and reproducible research. CC0 is the preferred license because it gives researchers @@ -479,9 +510,9 @@ In all honesty: we prefer both data and software to be free.

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15 How do I deal with private data and privacy?

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16 How do I deal with private data and privacy?

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A public sequence resource is about public data. Metadata can refer to private data. You can use your own (anonymous) identifiers. We also @@ -491,18 +522,18 @@ plan to combine identifiers with clinical data stored securely at

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16 How do I communicate with you?

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17 How do I communicate with you?

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We use a gitter channel you can join.

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17 Who are the sponsors?

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18 Who are the sponsors?

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The main sponsors are listed in the footer. In addition to the time generously donated by many contributors we also acknowledge Amazon AWS @@ -512,7 +543,7 @@ for donating COVID-19 related compute time.

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Created by Pjotr Prins (pjotr.public768 at thebird 'dot' nl) using Emacs org-mode and a healthy dose of Lisp!
Modified 2020-07-12 Sun 04:54. +
Created by Pjotr Prins (pjotr.public768 at thebird 'dot' nl) using Emacs org-mode and a healthy dose of Lisp!
Modified 2020-07-18 Sat 03:27.
-- cgit v1.2.3