Hi all,
I'm confused about the results I get when I map the reads back to the contigs from Abyss. There are a number of contigs where the...
21 results in 0.0032 seconds.
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de novo contigs don't match mapped reads
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MPI and multi-threading in trans-abyss
Can anyone explain to me the difference between MPI processes and multithreading in trans-abyss?
Are the two mutually exclusive alternative... -
Error when running ABySS
I am working on a centOS release 6.6 Linux cluster.
I have Abyss and open mpi installed in my path:
...Code:$ which mpirun /c3se/apps/Glenn/openmpi/1.5.4/bin/mpirun
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abyss-pe Read File Error:
Hello,
I am trying to run abyss-pe but I get the following error:
0: Reading `../../GerRegGA/GerRegina_1_trimmed.fastq'...... -
Redirecting ABySS temp directory
Basically I am filling my temp directory whilst running ABySS and due to running on a server am unable to increase the size of my temp dir but would be... -
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 :
... -
Miseq de novo assembly : Ambigous base pairs (NNs) in the contigs
Hi,
I am using MiSeq paired-end reads (250X) coverage ..quality trimmed ..for de novo assembly using abyss ..
In the assembly... -
Abyss de novo assembly question
Sorry,
I had to re-post this message here .....
Hi everyone;
I have pair-end reads (length 26... -
de novo assembly
Hi everyone;
I have pair-end reads (length 26 bases) Illumina fastq files and I want to perform de novo assembly. I have installed ABYss... -
Help with parallel transcriptome assembly.
Hello,
I am trying to assemble an insect (a leafhopper) transcriptome. The raw data is 372,756,990 reads, 150 bp in length. Previously,... -
Question About ABySS Algorithmic Steps
Hello, i am studing ABySS and i need some help to understand some steps that it does. I was reading abyss presenation of abyss that i came across here:... -
Generating input for Amosvalidate
Hi,
I'm using ABySS to assemble 14 FASTQ PE files into a 300MB assembly. I wanted to use AmosValidate (http://bit.ly/pSVBr8) for validation... -
Alternate contig scaffoldings with ABySS
Hi everybody,
I would like to know if anyone tried to scaffold contigs returned from ABYSS using several n (the minimum number of pairs needed... -
SOAPdenovo for ABySS contigs
Dear All
I am using ABySS to generate contigs from human reads. I now want to make scaffolds from it. I used SSPACE but did not get as... -
abyss-pe - no LIB-contigs.fa !!!
Hi all,
I'm new at using ABySS and when I ran the following command on ABySS v 1.2.7:
abyss-pe k=25 n=10 in=' /path/to/reads/file/1...Last edited by savkart; 07-30-2011, 05:40 AM.
