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Hi,
First, I want to thank you for implementing this pipeline with Nextflow, it's extremely convenient to use, and I was able to run it really easily on a HPC.
When working on whole genome metag…
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Parallel module exits with error, if the data are not in the same directory as the script. Running the `parallel.ngl` test exits with error, if data is moved into a subfolder: `sample.fq -> samle/samp…
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Dear @fpusan , dear @jtamames ,
I have one question regarrding assembly/binning strategy for metagenomes when co-assembly is not possible/advised.
If I undserstand correctly, in the merged mode of…
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Hi
Really excited to see your new results with pacbio HiFi data.
Is "HiCanu" activated when running canu (https://twitter.com/sergekoren/status/1217547604738732032) with the -pacbio-hifi option …
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This file contains the definition of the `Metagenome` class and accompanying methods for handling data. In reviewing it, I noticed the following issues:
1. In the `main` function, the `--cpus` argu…
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Hi,
Can we do the functional annotation for the Bins extracted from other tools? for example prediction of kegg and metacyc patwhays for each bin ?
Thanks
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Dear all,
First of all congratulations for the development of SqueezeMeta. It is deffinitively a great tool!
I run the pipeline as ```SqueezeMeta.pl -m coassembly -p SQM -s samples.txt -f reads …
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Hi Javier,
First of all I just want to say that I love the SqueezeMeta pipeline and the way you can easily access and visualise everything in R afterward.
The reason of my message is that I have bee…
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Hi all, thanks for the hard work. I noticed in the ftp zip files for the E. coli genomes, there are only these files :
-rw-r--r-- 1 clb21565 cs6824_f19 69616 Feb 24 14:48 ecoli_aligned_length_ecdf
…
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Hi Mikhail,
First of all, thanks for developing Flye. It is working nicely with ONT data.
I have a question regarding the best approach to follow with the datasets I have. We have extracted DNA from…