Hello there,
Given Lindgreen et al. 2016 (http://www.nature.com/articles/srep19233), I am thinking of trying and use CLARK as a pre-processing/taxonomical...
13 results in 0.0023 seconds.
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Using CLARK and EBI for metagenomes
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MG-RAST heatmaps vs tables
Hi,
I loaded different metagenomes and
compared them using the heatmap at the gene function level (the highest
level of comparison).... -
FreeBayes not standard haplotype calling
Dear,
It's the first time I'm trying to perform this type of analysis, and I'm not in a standard situation. Here's what I have.
... -
Assembled contigs vs short reads
I have recently finished assembling some metagenome sequences and after assigning function to my contigs I see that most genes belong to three specific... -
module not available - metagenome CRISPR anaylsis
Hello,
I am trying to analyze a metagenomic dataset for CRISPRs using a program called Crass. Analysis is taking place on a linux based cluster... -
Finding chimeric contigs in metagenome
Hi,
I have contigs and read tracking file(.afg file) generated from Meta-velvet for a simulated metagenome. I am looking for chimeric contigs... -
velvetg stops due to memory shortage
Hi all,
I have tried to use the velvetg for my metagenomic data assembly steps prior to MetaVelvet.
My machine is about... -
Considerations for a pilot study: HiSeq SR100 vs. MiSeq PE300
I am involved in a pilot experiment to examine the metagenomes of two environmental samples. This is largely exploratory at this point, with the intent... -
Can I combine 16S and 18S rRNA in one sequencing run?
Hello,
I wanted to examine a complex system for the presence of both prokaryotic and eukaryotic microbes.
Is it possible... -
Megan for contig or gene classification
Hi SEQanswers experts,
I've used megan extensively to taxonomically classify reads from metagenomes which is, according to the initial... -
Metagenomics tools?
I am new in bioinformatics, hence I am not so familiar yet with the existing tools.
I´ve been using Qiime for performing analysis in... -
Metatranscriptomes assemblers
Hi Everyone
Just wanted to know what assemblers/pipelines people are using for assembling metatranscriptomes. We have data sets from 200... -
CAP3 Assembler for Ubuntu 11.04
Does anyone have a clue how to get this program functional on the ubuntu 11.04?
