Forum: Bioinformatics
05-14-2019, 11:38 AM
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Replies: 1
Views: 800
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Forum: Sample Prep / Library Generation
05-18-2018, 01:42 PM
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Replies: 13
Views: 4,874
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Forum: Bioinformatics
03-06-2018, 08:47 AM
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Replies: 9
Views: 3,285
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Forum: Bioinformatics
03-05-2018, 10:54 AM
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Replies: 9
Views: 3,285
Thanks GenoMax. We are running our NextSeq...
Thanks GenoMax. We are running our NextSeq standalone.
The html file displays the metrics per lane per sample...I'd like to have the information for each sample combined into one row, e.g. Lane...
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Forum: Bioinformatics
03-05-2018, 07:53 AM
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Replies: 9
Views: 3,285
parser needed for bcl2fastq2 output
I'm looking for a parser to compile basic stats from the various html/xml/text output files from NextSeq runs. Looking for a text file to archive with fastq files that includes sample name, sample...
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Forum: Sample Prep / Library Generation
02-01-2018, 11:56 AM
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Replies: 7
Views: 6,756
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Forum: Bioinformatics
01-24-2018, 10:20 AM
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Replies: 3
Views: 2,209
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Forum: Bioinformatics
01-23-2018, 01:56 PM
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Replies: 3
Views: 2,209
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Forum: Metagenomics
12-05-2016, 11:36 AM
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Replies: 4
Views: 4,326
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Forum: Illumina/Solexa
10-12-2016, 01:21 PM
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Replies: 6
Views: 1,849
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Forum: Bioinformatics
05-27-2016, 01:51 PM
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Replies: 3
Views: 3,485
simple question for you linux users...i was...
simple question for you linux users...i was running an old version of quast that was functional but warned that i needed to update the version of matplotlib i was using.
updated quast and...
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Forum: Bioinformatics
04-19-2016, 07:07 AM
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Replies: 3
Views: 1,472
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Forum: Illumina/Solexa
04-11-2016, 01:33 PM
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Replies: 4
Views: 2,048
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Forum: Sample Prep / Library Generation
04-08-2016, 10:46 AM
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Replies: 14
Views: 13,496
I think Qiagen EB buffer was used. Either way...
I think Qiagen EB buffer was used. Either way these samples are fairly concentrated. I end up diluting close to 500x in water. GC content is around 48%, so no issues there.
It's definitely...
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Forum: Sample Prep / Library Generation
04-07-2016, 01:26 PM
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Replies: 14
Views: 13,496
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Forum: Illumina/Solexa
04-07-2016, 11:57 AM
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Replies: 68
Views: 27,147
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Forum: Bioinformatics
02-12-2016, 11:39 AM
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Replies: 678
Views: 214,813
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Forum: Bioinformatics
02-12-2016, 11:09 AM
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Replies: 678
Views: 214,813
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Forum: Bioinformatics
02-11-2016, 12:30 PM
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Replies: 678
Views: 214,813
sam files are an accepted input file type for...
sam files are an accepted input file type for dedupe.sh correct? Or would you recommend removing duplicates from the fastq files?
[root@g300-149-b0 bbmap]# ./dedupe.sh Um57.sam Um57_nodups.sam ...
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Forum: Bioinformatics
02-10-2016, 12:48 PM
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Replies: 678
Views: 214,813
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Forum: Bioinformatics
02-10-2016, 12:42 PM
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Replies: 678
Views: 214,813
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Forum: Bioinformatics
02-10-2016, 08:36 AM
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Replies: 678
Views: 214,813
Ouput below. This is a nextera XT fragment...
Ouput below. This is a nextera XT fragment library that I made and sequenced. Average insert size is around 900bp. I used the defualut bbmap settings adding qtrim=r and pairlen=2000
BBMap...
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Forum: Bioinformatics
02-09-2016, 01:51 PM
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Replies: 678
Views: 214,813
Trying out bbmap for the first time...I'm...
Trying out bbmap for the first time...I'm aligning illumina 2x275 reads to a fungal genome. Error and sub rates for the first few samples are high, around 70%. I'm assuming the high error rate is...
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Forum: Illumina/Solexa
12-01-2015, 11:46 AM
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Replies: 2
Views: 1,501
backordered illumina products
anybody having issues with backordered items from illumina lately? seems like every order over the last several months is backordered. at first it was just miseq reagent cartridges but now library...
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Forum: Bioinformatics
11-24-2015, 01:24 PM
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Replies: 14
Views: 4,765
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