All Questions

Filter by
Sorted by
Tagged with
0
votes
3answers
97 views

Should we allow questions where the title is not a question?

I think there are too many entries where the title is not a question. Related discussions: How do I write a good title? Should question titles be phrased as questions? (A straw poll)
3
votes
1answer
41 views

Should [benchmarking] and [performance] tags be synonyms?

I just created a "performance" tag for this question. I went to see if this tag could be added to other questions, and thought about this one, that happens to already have a "benchmarking" tag. ...
8
votes
3answers
79 views

What do we do with [software-recommendation]?

software-recommendation seems like a highly questionable tag to me, yet it’s collecting questions. On other Stack Exchange sites, most notably Stack Overflow, software recommendations are explicitly ...
10
votes
1answer
95 views

Is it okay to write a post Introducing a tool?

I have just developed a new bioinformatic tool and I was simply wondering whether it is okay to write a post introducing the tool?
10
votes
1answer
95 views

Are we supposed to delete comments, once the issue has been resolved?

Sometimes a comment, leads to the answer (or question) update. In such case the comment is not relevant anymore, since it addresses a resolved issue. Are we supposed to delete comments like this? E.g. ...
5
votes
3answers
97 views

Questions about commercial products where there are official support channels

Though inspired by this question, this tends to come up more often in relation to CLC Workbench. On occasion, people using commercial closed-source packages will post questions about using said tools ...
9
votes
1answer
80 views

General guidelines on creating tag synonyms and naming (personal opinions)

Recently, there have been a few threads on creating tag synonyms. I think most of these are not really synonyms. The following shows my thoughts about what are synonyms and what are not. I will also ...
7
votes
1answer
51 views

Can we add a [bedops] tag?

I was wondering how tags are added. I'm a new user to this SE site, so I don't have the reputation to add new tags. Can we please add a bedops tag to make it easier ...
-2
votes
3answers
90 views

Make tags [read-mapping] and [alignment] synonyms

As far as I can tell, there is no noticeable difference between the tags read-mapping and alignment. Three of the fifteen questions under these two tags use both tags, and the rest seem too similar to ...
14
votes
3answers
144 views

How do we feel about questions that are essentially about text parsing?

A lot of the daily tasks of a bioinformatician can be boiled down to simple text parsing. Yes, we will be dealing with text files containing some form of biological data, but the answer might not ...
4
votes
2answers
49 views

Tag [file-formats] or [data-formats] to replace [formats] tag

As of now, 5 questions have been tagged with formats and since bioinformatics in practice is 80%+ file format conversion, we can expect many more such questions! I ...
-1
votes
1answer
43 views

Replace sam and bam tags with a single sam-or-bam tag

The discussion in the recent suggestion to make sam and bam synonyms seems inconclusive with users falling on either side of the argument. I propose we instead remove both tags and create sam-or-bam,...
7
votes
2answers
393 views

Please stop cross posting behavior

Please stop cross posting behavior from biostars.org, where new questions are immediately transferred to this site. If you think you need this to boost your question count over the required threshold, ...
5
votes
5answers
102 views

Make tags [sam] and [bam] synonyms

SAM and BAM are effectively plain-text and binary representations of the same alignment format. I'd argue these terms should be synonyms. UPDATE: It doesn't look like we've reached a consensus, but I ...
6
votes
1answer
51 views

Make tags [mapping] and [read mapping] synonyms

The topic of read mapping is a sufficiently distinct subset of the more general class of sequence alignment topics to warrant a dedicated tag. However, we should collapse ...
3
votes
1answer
114 views

Essential questions about our site [closed]

Looking for help I found this post about the beta sites essential questions that need to be answered. Now, that we will go to public beta soon, we could decide when to answer them: Are questions ...
10
votes
3answers
135 views

Serving as a “support forum” for specific tools

One of the nice features of biostars is that the site is open to people using it as a forum for supporting their own tools (i.e., as a replacement for a tool-specific email list). The tool authors ...
22
votes
8answers
641 views

Accepting Nominations — Who should moderate this site? [duplicate]

Ideally, Moderators♦ are elected by the community, but until the community is large enough to hold a proper election, we will be appointing three provisional Moderators to fill those roles. We need ...
3
votes
3answers
122 views

Why is not BIoinformatics.SE part of Biology.SE?

I found this post on Biology.SE meta and it rises a fair point. Why we have to separate in different SE site? Why bioinformatics is not a part of biology? Is there any actual advantage of being split? ...
7
votes
1answer
89 views

Are stories useful for bioinformatics questions?

I've just had a look at the fastest FASTA/FASTQ question, and felt that it was a bit lacking in substance. It was an answerable, specific question, and all the answers seem to concentrate on a single ...
15
votes
3answers
227 views

Please refrain from closing proper but imperfect questions so quickly

I have been thinking about this for a while. This recently on-hold question really touches my nerve. The question is put on hold due to being too "broad". I will use it as an example to explain my ...
11
votes
2answers
148 views

Computational biology but not gene sequences?

I see that this site is focused on sequencing and genomics. I'm wondering if other fields that combine computations and biology are on-topic. Such as: molecular dynamics simulations, analyzing 3d ...
26
votes
4answers
801 views

Is there a large enough community to sustain this site?

Update: This site has passed the final evaluation! Barring any technical delays, Bioinformatics SE should go public sometime this week. Great work everyone! (original post) Spread the word. In less ...
7
votes
1answer
127 views

Is it okay to ask questions regarding being a bioinformatician?

I was wondering if the Bioinformatics SE is a good place to post questions relating to the process of research in bioinformatics. Example: What is the proper way to format a PK/PD model for a ...
6
votes
0answers
64 views

Standard language for comments asking for an improved question?

One of the first things I needed to learn when coming to SO for the first time was how to ask a good question. I suspect I'm not alone in this. I was fortunate to have responses to my first (poorly ...
14
votes
2answers
158 views

Should we allow questions about biology?

How do we feel about questions about biological principles that can be confusing to a bioinformatician with no background in biology? While purely biological questions should, I think, be off topic ...
4
votes
3answers
123 views

Should the first go an answer or comments?

I personally believe that community should offer the answer for the question before any other (even relevant) comment. I opening this thread, because one of the most upvoted answers is starting with ...
20
votes
1answer
131 views

Can we have syntax highlighting?

It seems that language syntax highlighting is not working. As I think we will have many answers involving small code fragments. Is it possible to enable this? Few examples: 1, 2. I used ...
7
votes
1answer
77 views

How much this site is/ going to be on-topic to bio student lacking a proper IT and stat base?

I felt like if anyone have to learn bioinformatics in the 'proper' way, conceptually; then a base of statistics, data-modelling and computer-programing is a prerequisite. But biology students of most ...
2
votes
1answer
49 views

How do we avoid (welcome?) link-only answers?

For example, below post has 2 answers that are almost link-only-answers ^1 . Improve a reference genome with sequencing data ^2 Maybe it is OK? Or would questions asking for a tool should simply be ...
10
votes
2answers
75 views

Q&A-Style Answering Own Question

Since the site is in beta, and the idea is to develop a core of high-quality questions: should we be posting what we think are good questions which we ourselves know the answers to? For example, I ...
8
votes
3answers
136 views

Migrating bioinformatics questions from other SE sites

There are a host of Bioinformatics questions on StackOverflow, CrossValidated, and probably other SE sites as well. Many of these questions would now be better placed here than on the site they were ...
14
votes
1answer
204 views

What to do with answers inspired by BioStars?

Out of curiosity I followed the first of Pierre's BioStars links from the comments on the FASTA lengths question, and noticed that our currently accepted answer bears a strong resemblance to this ...
9
votes
1answer
110 views

Testing the boundaries of good questions?

In general, if you are unsure whether a question is the sort of thing we are going to want to see here, is it better to ask it on the main site and see if it gets closed, or enquire on meta first if ...
20
votes
2answers
139 views

Can we have math layouting?

Several other communities (in particular Stats and Biology, which are closely related to Biofx.SE) have MathJax support. This would be highly desirable here as well, since pseudocode and equations ...
18
votes
0answers
105 views

Let’s standardise some tags

Let’s standardise some tags. For instance, there are already two competing conventions at work: rna-seq scrnaseq Either both should use a dash, or none should. I propose the slightly more readable ...
7
votes
3answers
177 views

Interacting with other Q&A communities

When the proposal of Bioinformatics started there was a discussion in Biostars about the this site (and SE in general compared to Biostars). Some of the points raised are: Unfriendly community, ...
6
votes
1answer
104 views

Where is the review button?

When I signed up for the site and look up in the part were the review button was suppose to be it wasn't there as indicated by this screen shot here. This seems kind of weird considering the fact ...
21
votes
3answers
217 views

What sort of questions are appropriate for Bioinformatics SE?

I have spent a lot of time on StackOverflow and am pretty familiar with the types of questions that are and are not allowed on the site. I am a little unsure as to how well the strict question rules ...

15 30 50 per page
1
2