SEQanswers

Go Back   SEQanswers > Search Forums


Showing results 1 to 8 of 8
Search took 0.00 seconds.
Search: Posts Made By: hetappi
Forum: Pacific Biosciences 01-19-2018, 02:48 AM
Replies: 2
Views: 1,985
Posted By hetappi
Now I used the program scaffold_builder, see ...

Now I used the program scaffold_builder, see
https://sourceforge.net/projects/scaffold-b/

This program did run for a few days and then it produced
a SINGLE CONTIG of 2GigaBases. I am a little...
Forum: Pacific Biosciences 01-18-2018, 05:59 AM
Replies: 2
Views: 1,985
Posted By hetappi
Combining PacBio assembly with 10X assembly?

Dear all,
Currently we created an assembly of a highly repetitive plant genome with
60x coverage of Pacbio reads (assembler HGAP4).

In addition we have 100x coverage with 10X Illumina reads....
Forum: Bioinformatics 11-06-2012, 06:07 AM
Replies: 0
Views: 635
Posted By hetappi
Consed: strange graphics

Dear all,

currently I am trying to edit a sanger/illumina mixed assembly with
consed. Here is a fragment of a screenshot:

http://caliban.mpipz.mpg.de/test/consed_screenshot.png

I would like...
Forum: Illumina/Solexa 01-06-2012, 07:51 AM
Replies: 14
Views: 7,575
Posted By hetappi
programs missing

Dear all,

Well, GBytes seem only part of the answer. :) Looking for errors in nohup.out
showed that on the smaller machine the programs "gnuplot" and "convert"
are missing:


[2011-12-22...
Forum: Illumina/Solexa 01-06-2012, 05:33 AM
Replies: 14
Views: 7,575
Posted By hetappi
Solution found

Dear all,

Finally the problem seems to be insufficient RAM in the computer I
used for demultiplexing (about 16 GByte). After switching the
program to a computer with 512 GByte RAM the program...
Forum: Illumina/Solexa 12-22-2011, 02:19 AM
Replies: 14
Views: 7,575
Posted By hetappi
Took al look in nohup.out

Thanks for your replies so far.

Actually I run the demultiplexing with make -j 3 in this case...

As suggested i took a look in the file nohup.out

Since this file is 4.6 MB I cite only the...
Forum: Illumina/Solexa 12-21-2011, 06:52 AM
Replies: 14
Views: 7,575
Posted By hetappi
Run ended normally otherwise...

Thanks for your reply,

We run it on a UNIX server (8 processor machine):

uname -a
Linux blakey 2.6.32-5-amd64 #1 SMP Mon Oct 3 03:59:20 UTC 2011 x86_64 GNU/Linux

The run did what is was...
Forum: Illumina/Solexa 12-21-2011, 04:21 AM
Replies: 14
Views: 7,575
Posted By hetappi
Can't find Demultiplex_Stats.htm file

Dear all,

After demultiplexing an Illumina run I can not find the
Statistics file (Demultiplex_Stats.htm), supposed to be in the directory Basecall_Stats...

I use the following command to do...
Showing results 1 to 8 of 8

 


All times are GMT -8. The time now is 11:39 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2018, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO