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Hello, I'm trying to run annotate_hits_pyseer using my unitig based hits. I can see my gff3 files have the following feature types so I'm not sure why the below command isn't working. I'm using Pyseer…
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Hello,
I am currently using metaMDBG for assembling metagenomic reads. I have encountered an issue where the unitigs.fasta.gz file is not generated during assembly. I have installed metaMDBG by build…
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Hello,
This bug only happens in ~1-10 out of ~5000 themisto build runs. I am running themisto on ~4500 genomes, calling themisto build on each of these genomes separately, using HPC to schedule the…
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Hi,
Thanks for this wonderful tool! I'm writing to ask a question about the color of unitigs. I found about 3% of the unitigs created from Bifrost is of no colors. Is this because these unitigs do …
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Hi,
I am wondering if I can get the kmer counts along with the unitigs fasta files.
Thanks,
Moustafa
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Hi Sebastian, Agnieszka, Heng,
AGC looks great. I wanted to see if it'd work also on badly-assembled sequences, e.g. unitigs, and didn't get good compression ratios. Would you say the approach fund…
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I ran
unitig-caller --call --refs assembly_paths.txt --out ZA_unitigs_v3 --write-graph --threads 32
Version 1.3.0. Where assembly_paths.txt had 1944 assembly paths, and the output had 903111 …
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Hi,
I used bwa mem to compare hic data to p-utg files and did some filtering on the results. It was found that there were very few hic signals on some short unitigs. I would like to ask whether hifia…
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Hi Caitlin,
Thanks for developing TreeWAS!
I'm trying to use unitigs with TreeWAS, and have been running into the below error:
```
Error in unlist(snps[!is.na(snps)]) :
long vectors not…
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Hello: I have checked my reads for duplicate entries as several previous entries have recommended and nothing has printed to STDOUT-- so I do not have duplicate entries in either my Self-to-Self mini…