I ran the following code: abyss-pe name=Name k=96 in=’read1.fastq read2.fastq’ And I received the following error: abyss-fixmate: error: The mate pairs of this library are …

Hello all, I cannot find the abyss wiki anymore (it is gone) and the github repository says that abyss does have the "se" command for …

Hi I am running the following script: #!/bin/bash # Abyss assembly pipeline cores=40 species='Favanaceum' Qcut=30 # merge non-overlapping pairs with konnector and assembly at various …

Hello! Recently I ran the following command: humann2 --resume --verbose --threads 8 --bypass-translated-search --bypass-prescreen --input ~/miniconda3/envs/humann2/Axenic_30mins_combined.fastq --output ~/miniconda3/envs/humann2/Axenic_30mins_combined_output_2.fastq.gz I was expecting three .tsv output files; …

I am having a persistent error in assembling my data. I have both Illumina short reads and PacBio assembled long reads combined in this command: …

I'm running a abyss-pe job using trimmed paired-end MiSeq data of sample with appr. genome size of 120Mb. I trimmed my data using Trimmomatic, which …

As a biologist, I am very confused when I am using qsub to submit a task, how to qsub a task that could run in …

<p>Say I am working on a server with a shared file system and 4 quad core nodes (I/O is not an issue, 16 cores total). …

<p>I am trying to assemble a 30-35Mbp diploid genome using Abyss from HighSeq Illumina runs. It takes a very long time (days) to compute assembly …

<p>I am using abyss-pe (latest 1.3.1 version) to do a <em>de novo</em> assembly of Illumina PE100 data. To save diskspace and to "limit" some IO …