Amali Thrimawithana

Question: How to krona plot from easy-taxonomy

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Hi I have run `mmseqs easy-taxonomy`on my query sequences using the `nr`database and now am keen to generate `krona` plot using `mmseqs taxonomyreport`. However I am a bit unsure on...

Removal of PCR/RNA primers

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Hi I am currently using afterqc to do QC trimming of the reads. Generally it performs well, removes adapters etc. However I noticed it doesn't seem to screen out primers....

Hi @ondovb Is there a potential way, that kronaTools could possibly highlight differences or commonality between two samples? Thanks Amali

transcript ID not found

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Hi, we are trialling the scpipe pipeline on some single cell data. I am getting the following error at the sc_exon_mapping stage. ``` R> sc_exon_mapping(inbam=aligned_bam, + outbam=mapped_bam, + annofn=c(exon_annotation), +...

Taxonomy IDs not matching

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Hi @jenniferlu717 Thanks for great tool. I am trialling the bracken tool on the kreports generated from kraken2. Braken run completed successfully, however when I was trying to use the...

Hi Would it be possible to add in a search box to this tool, like in degust? Thanks

finished abnormally, OS return value: -11

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### Description of bug Hi I am unsure whats causing the error here - there is plenty of memory available etc. Are you able to advise? Thanks in advance `==...

spades-hammer error : OS return value: -6

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### Description of bug The assembly run keeps dying at the spades-hammer step, although it worked fine on the other samples. I have tried re-installing spades; fresh set of fastqs...