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Search: Posts Made By: RobbenStijn
Forum: Bioinformatics 05-11-2017, 12:29 AM
Replies: 2
Views: 1,004
Posted By RobbenStijn
The number of "other" genes is around 60000 (all...

The number of "other" genes is around 60000 (all from the brainspan data). Would you recommend a statistical test?

I know it's not proof, but an indication would suffice. Thank you very much for...
Forum: Bioinformatics 05-09-2017, 05:15 AM
Replies: 2
Views: 1,004
Posted By RobbenStijn
Statistical analysis gene expression correlation

Dear all,

I've got a zinc finger protein (znf479) that binds on 920 genes in the brain. We hypothesize that the binding of this protein on a gene inhibits the transcription of these genes.

To...
Forum: Bioinformatics 02-23-2017, 04:35 AM
Replies: 15
Views: 3,344
Posted By RobbenStijn
I'm not sure I quite follow. I'm running this on...

I'm not sure I quite follow. I'm running this on a mac, so i think I clicked the right links?
And if I understand correctly I should not rename the python program?
Forum: Bioinformatics 02-23-2017, 03:59 AM
Replies: 15
Views: 3,344
Posted By RobbenStijn
Do you know how? Until now I just have the...

Do you know how? Until now I just have the wigToBigWig file which isn't readable actually. Also the command:

$ pip install wigToBigWig

gives the following error:

Could not find a version...
Forum: Bioinformatics 02-23-2017, 01:53 AM
Replies: 15
Views: 3,344
Posted By RobbenStijn
I clicked on your link, then on macOSX.i386/,...

I clicked on your link, then on macOSX.i386/, then downloaded wigToBigWig.
I put this file in the same directory as my BIG_BIGWIG.py. But I still get the same error...
Forum: Bioinformatics 02-23-2017, 01:29 AM
Replies: 15
Views: 3,344
Posted By RobbenStijn
Hi Tristan Again! I tried: $ python...

Hi Tristan Again!

I tried:

$ python BAM_BIGWIG.py Galaxy6RmDupdata.bam

This worked but it got me the following error:

Traceback (most recent call last):
File "BAM_BIGWIG.py", line 136,...
Forum: Bioinformatics 02-23-2017, 12:00 AM
Replies: 15
Views: 3,344
Posted By RobbenStijn
BAM to BIGWIG

I'm trying to convert a BAM file to a BIGWIG file on my mac using the following link:

https://github.com/chapmanb/bcbb/blob/master/nextgen/scripts/bam_to_wiggle.py

Could someone explain what...
Forum: Bioinformatics 02-21-2017, 02:46 AM
Replies: 0
Views: 1,832
Posted By RobbenStijn
Using MAC for analysis of proteins.

Dear all,

I'm completely new in the world of bioinformatics and I've got a fairly basic question for you. Any help would mean the world to me!

I found a dataset in which the ZNF778 was analyzed...
Forum: Bioinformatics 02-21-2017, 02:39 AM
Replies: 6
Views: 2,128
Posted By RobbenStijn
Thanks Tristan, that's great!

Thanks Tristan, that's great!
Forum: Bioinformatics 02-21-2017, 01:55 AM
Replies: 6
Views: 2,128
Posted By RobbenStijn
Thank you Tristan. I've got no clue how to...

Thank you Tristan.

I've got no clue how to use this sort of github files, but I'll try my best.

Regards,

Stijn
Forum: Bioinformatics 02-21-2017, 01:25 AM
Replies: 6
Views: 2,128
Posted By RobbenStijn
Dear Tristan, Sorry for my incomplete...

Dear Tristan,

Sorry for my incomplete information. I obtained some interesting data that I am analyzing though the following link:

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM2026850...
Forum: Bioinformatics 02-21-2017, 12:13 AM
Replies: 6
Views: 2,128
Posted By RobbenStijn
Making a coverage track of ZNF778

Dear all,

I'm completely new to bioinformatics and I've got a pretty basic question. For Zinc Finger Protein 778 (ZNF778) I am trying to create a coverage track. The problem is that I do not know...
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