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Forum: Bioinformatics 07-12-2017, 05:11 AM
Replies: 0
Views: 1,323
Posted By Splinter479
Reconstructing a de Bruijn Graph from Velvet's LastGraph

Hi,

I was wondering if someone can explain/ give hints to me about how to regain a de Bruijn Graph from Velvet's LastGraph representation of nodes and arcs?

I created an example with hashsize...
Forum: Bioinformatics 01-21-2014, 05:16 AM
Replies: 0
Views: 724
Posted By Splinter479
Looking for a tool - simulating recombination

Hi guys,
I am looking for a simple tool/script/software (UNIX) that simulates me a crossing over.
I found a lot about analysis tools and Bitvector shuffle in R but thats not what I am looking for....
Forum: Bioinformatics 10-29-2013, 05:59 AM
Replies: 3
Views: 1,755
Posted By Splinter479
I am currently programming a complete pipeline...

I am currently programming a complete pipeline for ddRADseq simulation.
Last step is to create paired end illumina reads.
My problem is, that the most simulators produce their own fragments...
Forum: Bioinformatics 10-29-2013, 05:28 AM
Replies: 3
Views: 1,755
Posted By Splinter479
Unhappy simulating illumina paired end reads

Hello Ladies and Gents,

I am currently trying to simulate illumina paired end reads. Here is the situation:

I have a fasta file containing many DNA fragments of different sizes.
Now I want...
Forum: Bioinformatics 08-16-2012, 01:54 AM
Replies: 1
Views: 816
Posted By Splinter479
Homopolymers // ValleyFilters

Hi,
I got a 454 sequencing run of a rabbit virus and it seems very crappy. I have no idea why,
the filters are all set on default as usual.
Of cause the first suspects are homopolymers. I am...
Forum: 454 Pyrosequencing 08-07-2012, 01:33 AM
Replies: 1
Views: 1,079
Posted By Splinter479
454RunTimeMetricsAll.txt comprehension

Hi,
currently I am parsing some information from the 454RunTimeMetricsAll.txt.
My problem is basicly to understand the layout of the file related to the actual system workflow of the 454.

The...
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