Hello everyone!
I am a 1st year PhD Biochemistry student who is doing NGS for the first time (also the first time in our research group)....
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NGS data analysis - help
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Odd sequences in RNAseq fastq
Hi all,
Recently, I just ran iSeq for pair ended RNA sequencing and it gave me odd fastq results
Some of Read1(i7) sequences have...Last edited by Kujin Kwon; 11-20-2019, 02:39 AM. -
Find_primer_sequence_and_reverse_complement_read_within_amplicon.fastq script needed
Hi,
I have a fastq file with merged amplicon sequence reads post Illumina sequencing. However, the library was build by ligating the Illumina... -
Discrepancies in Demultiplexing programs - help request
I have Illumina PE data from a MiSeq run and am finding large discrepancies in the number of reads recovered while demultiplexing.
Originally,... -
Prinseq-lite problem
Dear all,
I am using prinseq (v.0.20.4, CentOS) to filter my paried end data with the following commands.
[root@localhost]# perl prinseq-lite.pl...Last edited by kumar03; 12-09-2015, 06:40 PM. -
Quality check with barcordes
Hello guys!
I'm really beginner at bioinformatics.
I work with viral metagenomics and my library is going to be constructed with Nextera... -
What does PHRED stand for?
I know it seems like a silly question to ask, but Google has no answer for me, nor do the papers published by Phil Green and Brent Ewing themselves. The... -
Assembly paired-end sequences with Velvet
I have sequences from illumina HiSeq 2000. I'll show you the sequence data that I have a bacteria.
fernando@InvDllo04[Lactobacillus] grep... -
demultiplexing Nextera Rapied Capture exome data on bcl2fastq 1.8.3
I am using bcl2fastq 1.8.3 on ubuntu 14.04 LTS.
What's the best variable can be given for demultiplexing Nextera Rapied Capture exome... -
Demultiplexing with last three bases
What's the possibility of using the last three bases in the index for demultiplexing the HiSeq 2500 data using bcl2fstq
Let me say index... -
bcl2fastq run error
vanessa@vanessa:~$ /usr/local/bin/configureBclToFastq.pl --input-dir /media/vanessa/UUI/ngs/Data/Intensities/BaseCalls --output-dir /media/vanessa/UUI... -
Count Base Pairs?
I am new to DNA sequencing and I want to know is there any scripts or tools to count base pairs of a particular sequences. I am working on illumina HiSeq... -
Data Analysis Suggestion for a Newbie?
Hi all, I am a newbie in Bioinformatics. I've got data for paired-end DNA sequencing on Illumina platform and I am wondering if anyone is kind enough... -
Confusion regarding Illumina Adapter Trimming!
Dear Experts,
Please accept my apologies if this has been posted elsewhere. I am new to the analysis of RNA-seq data, and I am confused regarding...Last edited by SEQnovice; 11-29-2012, 11:02 AM.
