Hi all, I'm actually using MaSuRCA-3.2.6 to assemble my genome and a ran the fallowing script:
```
#PBS -S /bin/bash
...
18 results in 0.0037 seconds.
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Error using Masurca 3.2.6 assembler
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Pacbio assembly of polymorphic genome
Hi guys,
a quick question. I am new to pacbio. I've just received pacbio data for assembling a genome (low coverage). It comes from a highly... -
Pulling together contigs: a less stringent assembly
Greetings,
New grad student here working with a fungi with a genome that is roughly 42-50Mbs. Basically what I'm trying to do is an assembly... -
Introducing Tadpole: an assembler, error-corrector, and read-extender
Tadpole, a new BBTool, is an extremely fast kmer-based assembler. How fast is it? Around 250x faster than SPAdes with --careful (which is how we generally...Last edited by Brian Bushnell; 10-14-2015, 05:49 PM. -
Which metagenome assemblers are capable of efficient running on clusters?
Hi, I am trying to choose a metagenome assembler that would be able to run efficiently on a cluster (utilising cores from different nodes and using shared... -
Meracoulous assembler: has someone used it?
Hi everyone,
At the Assemblathon II competition there was an assembler reported as one which ranked higher about 10 times. It's called Meraculous... -
SOAPdenovo2 Ambiguous output redirect.
Currently using SOAPdenovo2 and used submission form below:
...Code:#!/bin/bash #$ -cwd #$ -N SOAPdenovo2 #$ -e /ibers/ernie/groups/rumenISPG/thh32/mcCabe_qualtrimmed_trimmed5P_files_.fastq/SOAPdenovo2.error
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ABySS error
I am currently attempting to compare assemblers for use on my dataset and had set ABySS running on our cluster with the submission form :
... -
What Assemblers do, if there are Ns in the reads?
I'm dealing with Illumina data for transcriptome study.
I could not find the clues about what the assembers (e.g. Trinity, Oases, SOAPdenovo-trans,... -
assembling metagenomics amplicon sequencing paired end data
Hi,
Can you let me know the best assembler for the 16s rrna amplicons. I am going to use QIIME after assembling for the taxonomy classification.... -
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SSAKE coverage output
When I use SSAKE to assemble short reads, sometimes it outputs *coverage.csv file, sometimes it doesn't.
It seems when there are lots... -
errors during installing mira on suse 10
I’m trying to comply mira 3.4.1 on a cluster computer with suse 10 Linux system. We’ve upgraded boost and flex to the latest version before complying.... -
Mira assembly -shell script
hello,
I'm a beginner in Assembly and shell scripting. My question is I already have pair-end reads generated using solexa. and on the... -
Choosing an Assembler(s)
Hey all,
I am trying to choose the best assembler(s) for a project I am working on. I was looking through the wiki page, and there are...
