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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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"""
The authors should design more simulated datasets to test the performance of these tools on detecting strain-level variants.
"""
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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…
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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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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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**references**
- White JR, Nagarajan N, Pop M (2009). [Statistical Methods for Detecting Differentially Abundant Features in Clinical Metagenomic Samples](http://www.ploscompbiol.org/article/info%3Ado…
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I have been using nib-genome-download on anaconda3 environment for awhile. But since yesterday, I noticed that the download package is not working. It gives no error, just going black and nothing happ…
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This describes the gathering of all the assemblies generated by Serratus into a single file.
TLDR: It's available at https://lovelywater2.s3.amazonaws.com/assembly/rdva/rdva_v0.2.fa.lz4
(updated 2…
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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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Hi,
I am using eggnog to annotate metagenome assemblies that contain all domains of life. I want to exclude Eukaryotes from my analyses. It seems that there are multiple ways to do this using --ta…