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Hi,
I got this error, could I have some suggestions? Thank you so much!
(DRAM) -bash-4.2$ DRAM-v.py annotate -i /lustre/haven/proj/UTK0124/ningd/whole_metagenome_2020/dram/virsorter12/M107/M107_…
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See issue #223.
When @asl runs Pfam on `SRR11648360.coronaspades.gene_clusters.fa`, he gets hundreds of hits.
When I run on `s3://serratus-rayan/master_table_assemblies/SRR11648360.fa`, I do no…
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Hello,
when I run command `virsorter run -w virsorter2/final-viral-boundary.tsv -i contigs.fa --include-groups "dsDNAphage,ssDNA" -j 8 --min-score 0.8 --db-dir references/virsorter2_db --use-conda-…
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Following this guide: https://github.com/DerrickWood/kraken2/blob/master/docs/MANUAL.markdown#custom-databases
As a test, I'm trying out sequence adding to an existing database using viral db as a ba…
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Hi
I have assembled my genome with canu using pacbio reads. It has assembled the genome into one large contig, however there is mis-assembly. Last half of the genome is put together in the beginnin…
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Hello!
Thanks for the nice code.
We are using VirSorter, and have got the "VIRSorter_affi-contigs.tab" file. but it seems that, the positoin annotation of some genes were wrong , for example: VI…
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## F1: CoV Phylogenetic tree
Objective: Create a master table for coronaviridae containing all GenBank records. This will in essence have to be split over several `tsv` files which will be stored in …
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I think the file `[accession].darth/[accession]/[accession].vadr.pass.tbl`gives the genome structure:
E.g.
```
>Feature ERR4238643.coronaspades.NODE_1_length_29820_cluster_1_candidate_1_domain…
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Hi there,
I tried running GRIPSS with this:
```
java $JVM_OPTS $JVM_TMP_DIR -cp $GRIPSS_JAR com.hartwig.hmftools.gripss.GripssApplicationKt \
-ref_genome $REFERENCE \
-breakend_pon $GRI…
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Hi there,
I have learned that metaviralSPAdes was used for virus from metagenomes, but not very suitable for metatranscriptomes.
So can I use tools like Trinity or rnaSPAdes to first assemble th…