pedres

parse_phyloseq and n_obs as node_size question

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Hi, I am just started to work with metacoder, but I have a simple question. When I import a phyloseq object with parse phyloseq I can see the all components...

DAS tool issue (SqueezeMeta v1.5)

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Hi, I have finished a full run of SqueezeMeta pipeline using three binners (-binners metabat2,maxbin,concoct), and when I check the method file I saw that apparently only metabat2 and maxbin2...

## Short description of the problem I am sorry to bother you with this problem but I cannot co-assemble my samples. I am following the TARA tutorial with my samples,...

Hi, I want to do a post-hoc comparison following a global chi-square test. I have used the pairwise_chisq_gof_test as recommends the help pages but I do not know how the...

Cannot install mitre

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Hi, I am not able to install mitre. I created a conda environment conda create -n mitre python=2.7 conda activate mitre pip install mitre The packages are downloaded but the...

problem converting gff

3

Hi, I am trying to convert a gff to a .chrom. The script works with the example python NCBIgff2chrom.py GCF_000001405.39_GRCh38.p13_genomic.gff.gz > GCF_000001405.39_GRCh38.p13_genomic.chrom. However, it does not work with the two...

Hi, I was searching here and in the manual but I am not sure how to proceed. I want to classify a sample with paired reads and I understand that...

Hi, I was searching here and in the manual but I am not sure how to proceed. In the manual says that "--paired option to kraken2 will indicate to kraken2...