SEQanswers

Go Back   SEQanswers > Search Forums


Showing results 1 to 6 of 6
Search took 0.00 seconds.
Search: Posts Made By: Simon Anders
Forum: Illumina/Solexa 03-20-2013, 05:28 AM
Replies: 58
Views: 52,728
Posted By Simon Anders
How do you know that red means plus and blue...

How do you know that red means plus and blue means minus? Maybe it's the other way round.

Also note that "first-of-pair" probably means that also the second read is coloured according to the...
Forum: Illumina/Solexa 03-20-2013, 05:17 AM
Replies: 58
Views: 52,728
Posted By Simon Anders
Well, let's parse your flag fields. 99d =...

Well, let's parse your flag fields.

99d = 63h = 0110.0011b means: 1st mate, aligned to plus strand
147d = 93h = 1001.0011b means: 2nd mate, aligned to minus strand

There you have it. The...
Forum: Illumina/Solexa 06-29-2011, 05:53 AM
Replies: 58
Views: 52,728
Posted By Simon Anders
Sorry, it seems I forgot to upload the latest...

Sorry, it seems I forgot to upload the latest version. Please try with 0.5.3.
Forum: Illumina/Solexa 06-29-2011, 01:08 AM
Replies: 58
Views: 52,728
Posted By Simon Anders
I've added the '--standed=reverse' option...

I've added the '--standed=reverse' option promised above since then.
Forum: Illumina/Solexa 03-22-2011, 02:08 AM
Replies: 58
Views: 52,728
Posted By Simon Anders
Just to quickly clarify: htseq-count does...

Just to quickly clarify:

htseq-count does not look at the 'XS' optional field, only a the strand information according to the FLAG field. The strand information in the FLAG field (bit 0x10)...
Forum: Illumina/Solexa 03-16-2011, 08:59 AM
Replies: 58
Views: 52,728
Posted By Simon Anders
In case of "--stranded=yes", only those reads are...

In case of "--stranded=yes", only those reads are counted that map to the same strand as the gene sits on, i.e., I assume strand-specific RNA-Seq sequences the coding strand. This is how it is with...
Showing results 1 to 6 of 6

 


All times are GMT -8. The time now is 08:11 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2021, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO