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Forum: Illumina/Solexa

02-06-2019, 12:40 AM

Replies: 0

How to NOT generate fastq files on MiSeq

Views: 894

Posted By NGSMicro

How to NOT generate fastq files on MiSeq

Hello,

Normally we would generate fastq files on our MiSeq using miseq reporter, however we need to run multiple runs one after the other as fast as possible.

I have installed bcl2fastq and got...

Forum: Illumina/Solexa

11-08-2018, 03:04 AM

Replies: 2

What volume of adapters do you get in the nextera XT kits?

Views: 1,130

Posted By NGSMicro

Thank you, most appreciated.

Thank you, most appreciated.

Forum: Illumina/Solexa

11-07-2018, 06:01 AM

Replies: 2

What volume of adapters do you get in the nextera XT kits?

Views: 1,130

Posted By NGSMicro

What volume of adapters do you get in the nextera XT kits?

Hello,

At our lab we have a custom protocol for adding indices to our amplicons, using only 5uL of each index when using the "Nextera XT Index Kit (24 indexes, 96 samples)".

I want to update...

Forum: Bioinformatics

09-12-2018, 07:15 AM

Replies: 2

Trimmomatic memory use

Views: 2,366

Posted By NGSMicro

I don't know for certain, but it could be that...

I don't know for certain, but it could be that trimmomatic is opening 4 of the files at a time, as it has 4 threads working.

Forum: Bioinformatics

05-08-2018, 01:32 AM

Replies: 2

non-overlapping options please help!

Views: 973

Posted By NGSMicro

Have you tried QIIME2? It provides a few...

Have you tried QIIME2?

It provides a few higher resolution methods of clustering meaning you may be able to 'get away with' using only the forward reads.

Forum: Sample Prep / Library Generation

04-26-2018, 06:56 AM

Replies: 5

alternative SPRI beads

Views: 3,474

Posted By NGSMicro

Also using homemade beads with the same protocol...

Also using homemade beads with the same protocol as melop, much cheaper.

If you're worried they aren't as good you can validate them against whatever you're using now.

Forum: Illumina/Solexa

04-26-2018, 06:40 AM

Replies: 6

Creating Custom dual index primers for Illumina Seqeuncing

Views: 3,163

Posted By NGSMicro

I have been looking at ordering my own custom...

I have been looking at ordering my own custom indices - I have hypothetically made some like this:

CAAGCAGAAGACGGCATACGAGATagctcaacGTCTCGTGGGCTCGG

Where the first section binds to the flow...

Forum: Introductions

04-26-2018, 06:32 AM

Replies: 0

Hello all!

Views: 2,779

Posted By NGSMicro

Hello all!

Read a lot of posts here whilst trying to set up some NGS methods so thought I might as well join.

We currently have a few qPCR instruments and a MiSeq.

Currently I am looking at implementing...

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