Hi Rajeh, I suggest you read the algorithm description in this paper:
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0011147
which discusses this issue.
On Tue, 2015-11-17 at 17:09 -0600, Ahmad Rajeh wrote:
> Hello,
>
> I have a question about Mauve’s algorithm: How does Mauve
Hello,
I have a question about Mauve’s algorithm: How does Mauve deal with contigs
that are found in more than one region in the reference? I tried to test this
by aligning a contig I had to a reference containing the same contig twice.
Mauve only aligned the contig to the first occurrence in t
Hi Swati,
Based on that console log it looks like you may need to run some
sequence assembly prior to applying the mauve contig mover.
The sample names appear to correspond to short read archive accessions
and the total sequence lengths are much too large to be S. aureus, which
typically have gen
Hi Rajeh,
On Mon, 2015-11-16 at 17:55 -0600, Ahmad Rajeh wrote:
> Hello Mauve-users,
>
> I have 2 questions: First, could someone please explain seed weight
> and minimum LCB to me? The manual's descriptions are unclear to me.
> For example, all I want is to consider contigs that share at least 1
Hi Varduhi,
Based on the information you have provided it is not clear why
progressiveMauve would have terminated prematurely. I note that the
stdout and stderr were directed to two files, mauvetrialoriginal.e358216
and mauvetrialoriginal.o358216
I suggest inspecting those files for clues and als
Hello,
I am trying to align 26 *Staphylococcus aureus *samples in Mauve
Contig Mover .the program gets terminated at 99%. How to resolve it?
Running alignment.
Executing
win64\progressiveMauve
--output=G:\MRSA _FASTA sequence- Backup\FASTA format\output\Mauve Output
--output-gui
