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Hi,
Thank you for great tool!
I have encountered problem with sprayandpray.
When I run:
spray-and-pray.py -g assembly.fasta -out endosymbionts_out -cd 0.5 -L 1000000 -perc 50 -ref /BLAST_d…
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Common: "Genus sp1/sp2" => "cf. sp1/sp2" ? Chaetoceros convolutus/concavicornis
Some problems:
"var." "Bacillaria paxillifer var.tumidula"
32 ["aff Catenula",null,null]
"Chrysophyceae cyst 1"…
cnrdh updated
2 years ago
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Q about choosing cutoffs in the presence of biologically meaningful contaminants.
This Falcon-Unzipped primary assembly of a diploid insect is likely to have a 5 MB contaminant.
, abiotic versus biotic environments etc.
**_Examples from Droege et al. …
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We are trying to test our local installation of checkm2 by reproducing Completeness data for assemblies listed in Supplementary Table 6 from the preprint: https://www.biorxiv.org/content/10.1101/2022.…
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Hi!
I am trying to binning by SprayNPray, and my command is
`spray-and-pray.py -g /flash/HusnikU/Cong/assembly/ACAB_assembly.fna -bam /flash/HusnikU/Cong/bam/ACAB.bam -out ACAB -t 32 -ref /apps…
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Cross link to #672
Within the EBI/JGI GOLD's ``root > Host-associated`` hierarchy there are a many organismal groupings which are not monophyletic clades, and cannot be described by an existing NCB…
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@Clare72 (FlyBase) has kindly started a review of alignments between DPO and PHIPO. Here are her notes:
DPO | PHIPO | Label DPO | Label PHIPO | Alignment | Note
-- | -- | -- | -- | -- | --
FBcv_0…
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Hi, my question is very similar to #1411 , but I was not able to determine next steps from reading that issue.
I have 40 outgroup (free-living) and 8 ingroup (endosymbiont) bacteria genomes. The ro…