Talk:De novo sequence assemblers

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The author clearly has a strong background on this subject and has presented a great initial article. I really enjoyed that they have incorporated exterior links to software pages to readers can immediately access the software.

The first thing that I noticed is a lack of a working title for the page. Don't forget to include that!

I was slightly confused at the end of the introductory paragraph with the reference to the Asemblathons. I realize it is covered later on in the article but it might be useful to provide a short summary of what that is.

I was wondering it they could possibly expand on the types of de novo assemblers? Perhaps an addition of some history for the topic might help provide context for the page, otherwise it might read like a user manual.

I think that the language used in this article could prove to be difficult and slightly repetitive for some wiki users. I realize that there is limited vocabulary for this topic, however, in the first sentence alone the word "sequence" is used four times. The author has linked to some wiki articles, like transcriptomes, but hasn't to other topics like genomes. It would definitely be helpful to add those links so that readers can easily access that information. There are some grammatical errors (see last paragraph "the the" for example).

On a side note, I think this article is going to be an incredibly useful addition to Wikipedia and I cannot wait to use it! It has already helped clarify some questions I had.

--Jwhelpley (talk) 01:22, 3 March 2017 (UTC)

Feedback from Emily

Emilysessa (talk) 14:52, 13 April 2017 (UTC)

You've done a great, really thorough job with this page! I'm surprised there wasn't anything on this subject before you started - really great that you've filled this gap on Wikipedia.

One thing to fix - there's a warning box at the top that says this page is an orphan, I'm sure there are lots of pages you could link to this one from, and that's an important thing to do, so that this page gets integrated into the Wikipedia sections on assembly. Please do this for the final version.

I see a few places where you could add links to other pages, like in the first sentences - "greedy algorithm" and "De Bruijn graph" both have pages you could link to. Also, the D and B in De Bruijn need to be capitalized - please give your page a read-through and fix this everywhere you have them lowercase.

Clarify at the very end of the first section, before the Contents box - is the Assembleathon specifically targeted at de novo assemblers only? Important to say this if so, or explain that it also includes reference-guided assemblers.

Under the Assembleathon, need to give a date for the "in progress" statement - obviously this page is static so that statement will soon be incorrect. Change to "in 2017" or something similar. I'm not sure what "notable softwares" means under this section - please explain further. Where these the only ones uses? The best ones? Also, under Assemblathon 1 (and 2), I think it's important to say in that first section what the metrics for success would be. I have no idea what "to best assemble a genome" means, and you need to explain that right at that point.

Nice job!

Hi Emily, I added in links to this page, but it still says it's orphan; not sure if it just takes some time for the warning to go away or if I need to add more.

- Anthony — Preceding unsigned comment added by Meltonae (talk • contribs) 17:32, 21 April 2017 (UTC)