Re: They wrote the fastest parallelized BAM parser in D

2015-03-31 Thread Andrew Brown via Digitalmars-d
Visualisation is certainly not behind python's success in bioinformatics, which predates ipython. If you look through journals, very few of the figures are done in python (and none at all in julia). It succeeded because it allows you to hack your way through massive text files and it's not

Re: They wrote the fastest parallelized BAM parser in D

2015-03-31 Thread John Colvin via Digitalmars-d
On Monday, 30 March 2015 at 20:28:11 UTC, Paulo Pinto wrote: On Monday, 30 March 2015 at 18:04:58 UTC, george wrote: .NET actually already has a foothold in bioinformatics, specially in user facing software and steering of reading equipments and robots. So D's needs a story over C# and F#

Re: They wrote the fastest parallelized BAM parser in D

2015-03-31 Thread John Colvin via Digitalmars-d
On Tuesday, 31 March 2015 at 08:09:00 UTC, Andrew Brown wrote: Visualisation is certainly not behind python's success in bioinformatics, which predates ipython. If you look through journals, very few of the figures are done in python (and none at all in julia). It succeeded because it allows

Re: They wrote the fastest parallelized BAM parser in D

2015-03-31 Thread Laeeth Isharc via Digitalmars-d
As Andrew Brown pointed out, visualization is not behind Pythons success. Its success lies in the fact that it's a language you can hack away in easily. Sounds right. I am not in the camp that says it is a killer for D. It would just be nice to have both at least a passable solution for

Re: They wrote the fastest parallelized BAM parser in D

2015-03-31 Thread Chris via Digitalmars-d
On Monday, 30 March 2015 at 18:23:31 UTC, Russel Winder wrote: On Mon, 2015-03-30 at 18:04 +, george via Digitalmars-d wrote: .NET actually already has a foothold in bioinformatics, specially in user facing software and steering of reading equipments and robots. So D's needs a story

Re: They wrote the fastest parallelized BAM parser in D

2015-03-31 Thread Paulo Pinto via Digitalmars-d
On Tuesday, 31 March 2015 at 11:04:50 UTC, Laeeth Isharc wrote: As Andrew Brown pointed out, visualization is not behind Pythons success. Its success lies in the fact that it's a language you can hack away in easily. Sounds right. I am not in the camp that says it is a killer for D. It

Re: They wrote the fastest parallelized BAM parser in D

2015-03-31 Thread Chris via Digitalmars-d
On Tuesday, 31 March 2015 at 13:31:33 UTC, Chris wrote: On Tuesday, 31 March 2015 at 11:04:50 UTC, Laeeth Isharc wrote: As Andrew Brown pointed out, visualization is not behind Pythons success. Its success lies in the fact that it's a language you can hack away in easily. Sounds right. I

Re: They wrote the fastest parallelized BAM parser in D

2015-03-31 Thread Chris via Digitalmars-d
On Tuesday, 31 March 2015 at 11:04:50 UTC, Laeeth Isharc wrote: As Andrew Brown pointed out, visualization is not behind Pythons success. Its success lies in the fact that it's a language you can hack away in easily. Sounds right. I am not in the camp that says it is a killer for D. It

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread Paulo Pinto via Digitalmars-d
On Monday, 30 March 2015 at 06:50:19 UTC, george wrote: http://bioinformatics.oxfordjournals.org/content/early/2015/02/18/bioinformatics.btv098.full.pdf+html and a feature

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread Laeeth Isharc via Digitalmars-d
On Monday, 30 March 2015 at 06:50:19 UTC, george wrote: http://bioinformatics.oxfordjournals.org/content/early/2015/02/18/bioinformatics.btv098.full.pdf+html and a feature

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread george via Digitalmars-d
.NET actually already has a foothold in bioinformatics, specially in user facing software and steering of reading equipments and robots. So D's needs a story over C# and F# (alongside WPF for data visualization) use cases. -- Paulo Though when it comes to open source bioinformatics

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread Russel Winder via Digitalmars-d
On Mon, 2015-03-30 at 18:04 +, george via Digitalmars-d wrote: .NET actually already has a foothold in bioinformatics, specially in user facing software and steering of reading equipments and robots. So D's needs a story over C# and F# (alongside WPF for data visualization) use

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread Paulo Pinto via Digitalmars-d
On Monday, 30 March 2015 at 18:04:58 UTC, george wrote: .NET actually already has a foothold in bioinformatics, specially in user facing software and steering of reading equipments and robots. So D's needs a story over C# and F# (alongside WPF for data visualization) use cases. -- Paulo

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread Andrei Alexandrescu via Digitalmars-d
On 3/29/15 11:50 PM, george wrote: http://bioinformatics.oxfordjournals.org/content/early/2015/02/18/bioinformatics.btv098.full.pdf+html and a feature

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread Andrei Alexandrescu via Digitalmars-d
On 3/30/15 11:23 AM, Russel Winder via Digitalmars-d wrote: On Mon, 2015-03-30 at 18:04 +, george via Digitalmars-d wrote: .NET actually already has a foothold in bioinformatics, specially in user facing software and steering of reading equipments and robots. So D's needs a story over C#

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread Laeeth Isharc via Digitalmars-d
My prejudice, based on training people in Python and C++ over the last few years, is that Python and C++ have a very strong position in the bioinformatics community, with the use of IPython (now becoming Jupyter) increasing and solidifying the Python position. It's just possible there is a

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread CraigDillabaugh via Digitalmars-d
On Monday, 30 March 2015 at 20:09:35 UTC, Laeeth Isharc wrote: clip You're right about the lack of visualization being a shame. I have been thinking about porting Bokeh bindings to D. There isn't much too it on the server side - all you need to do is build up the object model and

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread Paulo Pinto via Digitalmars-d
On Monday, 30 March 2015 at 18:23:31 UTC, Russel Winder wrote: On Mon, 2015-03-30 at 18:04 +, george via Digitalmars-d wrote: .NET actually already has a foothold in bioinformatics, specially in user facing software and steering of reading equipments and robots. So D's needs a story

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread lobo via Digitalmars-d
On Monday, 30 March 2015 at 20:25:33 UTC, CraigDillabaugh wrote: On Monday, 30 March 2015 at 20:09:35 UTC, Laeeth Isharc wrote: clip You're right about the lack of visualization being a shame. I have been thinking about porting Bokeh bindings to D. There isn't much too it on the server

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread george via Digitalmars-d
I did some image processing work with D and didn't find the lack of specific D tools for visualization a big issue. There is some advantage to being able to perform visualization tasks in the same lanaguage as you do the data processing work, but I wouldn't this this would be a major

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread Craig Dillabaugh via Digitalmars-d
On Monday, 30 March 2015 at 22:55:37 UTC, lobo wrote: On Monday, 30 March 2015 at 20:25:33 UTC, CraigDillabaugh wrote: On Monday, 30 March 2015 at 20:09:35 UTC, Laeeth Isharc wrote: clip You're right about the lack of visualization being a shame. I have been thinking about porting Bokeh

Re: They wrote the fastest parallelized BAM parser in D

2015-03-30 Thread Laeeth Isharc via Digitalmars-d
On Tuesday, 31 March 2015 at 02:31:58 UTC, Craig Dillabaugh wrote: On Monday, 30 March 2015 at 22:55:37 UTC, lobo wrote: On Monday, 30 March 2015 at 20:25:33 UTC, CraigDillabaugh wrote: On Monday, 30 March 2015 at 20:09:35 UTC, Laeeth Isharc wrote: clip You're right about the lack of