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WGCNA Workflow from GEO FASTQ Files – Expression Type, Sample Inclusion, and Preprocessing
Hello, I’m new to bioinformatics and would appreciate some guidance on the general workflow for WGCNA analysis in disease studies. If there are any... -
QIAseq FX DNA Library Kit adapters for trimming
Can anyone point me to the sequences of QIAseq FX DNA Library Kit for adapters trimming in preprocessing? Illumina has exact sequences for trimming included... -
Ion Torrent data preprocessing
Hi All,
I would like to know about which tool is good for preprocessing of Ion Torrent whole exome data?
Thanks -
pooling reads for error correction
For error-correction of Illumina reads, is it a good idea to pool reads from several samples and do error correction on the pool, rather than individually?... -
Firebrowse Methylation Preprocessing CutOff
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Trimmomatic - unknown trimmer error?
Hi all,
I am really struggling with Trimmomatic these days and the frustration level is rising (I have to meet a deadline). For multiple... -
Paired-end Illumina reads preprocessing with Trimmomatic
Dear all,
I have few questions about the trimming of adapters with Trimmomatic. I have 2x150 bp paired end runs from Illumina MiSeq system.... -
Can I use preproccesed bam files for Cufflinks?
This question has been asked here previously: http://seqanswers.com/forums/showthr...s+preprocessed
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GATK preprocessed bam files for cufflinks?
Hello all,
I'm relatively new to rnaseq analysis. I've been reading a lot and currently trying to come up with a reliable pipeline.
My question... -
De novo assembly of 454 exome sequencing
Hi people, just wanted some advice on a situation.
I have a dataset of 454 genome sequencing that has been enriched for gene-rich regions... -
Test for RNAseq data preprocessing step (with regards to adapter and hexamer)
Hi, every one. This is my first thread at this forum, so please forgive me if I asked some naive questions.
My question is at the bottom... -
GATK pipeline runtime
I wonder if I'm doing the things right; it takes so long.
I'm going to find SNPs for about 100 giga bps for the human genome.
...Last edited by alexbmp; 11-03-2011, 10:33 PM. -
Illumina1.8 Paired-End Barcode Splitting?
Hi everyone,
Hopefully this is a pretty simple question with a pretty simple answer. I've been using a pipeline for pre-processing Illumina1.8,... -
454 assembled reads
I have 454 assembled contigs, Isotigs and singletons. The core facility that we used has done this for us, using Newbler. Do I still need to get rid of...Last edited by katussa10; 11-30-2010, 05:14 AM.
