Hello, and thank you, but no this doesn’t answer my question.
Here is my scenario:
F.fastq = 538011 reads
R.fastq = 539168 reads
Total F + R = 1077179
Mira_reads Assembled = 291737
Singlets = 54423
Debris = 785442
Debris + reads Assembled = 1077179 (this matched the total reads for F and R
added together)
My Questions then:
1. I would like to know if the singlets are included in the
Mira_reads_Assembled count (I am assuming they are not).
2. To find out the % reads assembled is this:
a) Mira_reads Assembled DIV ?
? = Total F + R or (Debris + reads Assembled)
? = average of (F.fastq and R.fastq)
? = highest F.fastq/R.fast reads
Basically I need to know if the assembled reads are for all reads input/ or is
dependent on either F.fastq/R.fastq
Kind regards,
Dale
From: mira_talk-bounce@xxxxxxxxxxxxx [mailto:mira_talk-bounce@xxxxxxxxxxxxx] On
Behalf Of Bastien Chevreux
Sent: 01 October 2015 14:35
To: mira_talk@xxxxxxxxxxxxx
Subject: [mira_talk] Re: Paired-end counts
Would a
"wc -l *_info_debrislist.txt"
not be easier?
B.
On October 1, 2015 at 8:59 AM "Bridges, Dale"
<DBRIDGES@xxxxxxxxxxx<mailto:DBRIDGES@xxxxxxxxxxx>> wrote:
Hello, again.
Just a little question about numbers.
1. When MIRA show the ‘Mira_reads Assembled’ in the _info_assembly.txt
file.
For paired end, is this out of a total of all forward.fastq + reverse.fastq
reads, or an average of the two, or is this calculated in another way?
2. If the number of singlets are also counted (are these inclusive to the
reads assembles number or exclusive)?
Basically I am trying to find out, from the total forward.fastq + Reverse.fastq
what % of reads were assembled by Mira.
Any insight will be greatly appreciated.
Kind regards,
Dale
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