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I'm trying to run rnaSPAdes on a cluster system using the following command:
`SPAdes/bin/rnaspades.py -o output --only-assembler -t 16 -m 500 -1 scratch/exposed_1_val_1.fq.gz -2 scratch/exposed_2_v…
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Hi, I am trying to assembly virus genome (max length 10000 bp) but flye keeps reporting no overlaps found. Could you please help me?
Log file:
[2019-05-24 14:51:08] root: INFO: Starting Flye 2.4.2…
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I'm using canu 1.8 on a galaxy service
Command:
```
canu -p canu -d out_dir genomeSize=5m rawErrorRate=0.5 correctedErrorRate=0.144 minReadLength=1000 minOverlapLength=500 corOutCoverage=40 con…
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Hello,
I am currently using `Canu 1.7.1` and I am running into issues. This is the command I am using:
```
canu -p Bgh -d out genomeSize=130m -pacbio-raw combined.ccs.fasta
```
I keep runn…
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Hello,
I'm attempting to use BELLA but have encountered a problem in the alignment step.
The installation is one CentOS 3.10, using gcc 6.3.0, with virtualenv pip install of simplesam. When I t…
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## Expected Behavior
Precompute mmseqs index tables are generate using `createindex`
## Current Behavior
Fails after a few minutes of computation with the following error message:
**indexdb died…
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Hello,
I am trying to assemble a fungal genome using ABruijn and I am running into issues. The genome (~130Mb) has been sequenced on a PacBio Sequel machine with 4 SMRTcells. I ran abruijn but I ra…
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```
Linux-amd64/bin/canu obtovlMemory=1G obtovlThreads=2 useGrid=false -p ecoli -d ecoli-auto genomeSize=4.8m -pacbio-raw ecoli_p6_25x.filtered.fastq
```
```
-- Canu 1.8
--
-- CITATIONS
--
-…
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I'm assembling several PacBio seq'd multiplexed bacterial genomes (Sequel data) using Canu ver. 1.7. All jobs were run on a Linux cluster using a single node, 32 core, 500 GB ram.
The assemblies…
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Hello,
I am trying to use my CANU corrected reads to do a trimming and assembly
the command I used was
canu -trim-assemble -p canu_trim_assemble -d /group/pasture/Saila/CANU1.8/Saila_CANU_trim_as…