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"""
The authors should design more simulated datasets to test the performance of these tools on detecting strain-level variants.
"""
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I am trying to run an assembly with only larger kmers, but the MEGAHIT appears to use the default kmer list. Is there something that I am missing? Code and options.json shown below. Thanks!
Code:
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Thank you for your efforts.
I recently obtained over 30 NGS data sets that are all closely related to one another. We obtained over 500 contigs for each genome after denovo reference-free assembly.
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Is there any method in place to do the FMAP_mapping.pl step for paired end fastq files? Is giving both the files as parameters for the perl script sufficient or is there any other way to go about this…
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HI,
I used vRhyme with the default settings on my assembled contigs. I concatenated contigs from the same bins into a single fasta file using the provided bin sequences.py script.Later, I used …
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Hey there,
I've been testing some PLASS assemblies with my datasets and I noticed that it retrieves ~50x times more proteins than my MEGAHIT+Prodigal predictions, which is way more than what is sho…
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Reminder to build a Docker container deployment for the Vue application and servers with port forwarding to host.
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Kind of like bandage mixed with current plots
Use would be to determine HGT and resolve contigs with highly different coverage
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Hi @elimoss
I am using your tool for assembling my long reads metagenome. I have a doubt in the procedure of assembly that does the lathe also bin the genomes before doing the circularization or do w…
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I'm running DAS_Tool on a large number of metagenome assemblies, and hoping to use the calculated completeness and contamination statistics to input into dRep to save the redundant invocation of Check…