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Hi,
I tried to run EviAnn with bam alignments, protein seq, and fastq reads as evidence to annotate a genome but keep getting the following msg:
ls: cannot access 'tissue*.bam': No such file or di…
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### Context
Unable to create new bacteria transcriptome indices after merging in new mappings via https://github.com/AlexsLemonade/refinebio/pull/3366.
In order to create a new transcriptome ind…
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Hi,
I am using sortgrcd v2.1. I am finding potentially strange behaviour when I output in any of the newly supported formats (-O 3, 6, 7, 8). If more than one target sequence hits a particular region…
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I think this issue is related to something that has been mentioned previously here, but I'm not sure that it is resolved.
I am using GSalign to align and call variants from a series of assembled ge…
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Hello, software developer. I have three ONT datasets in total. The first two ran normally, but the third one encountered the following error. What could be the reason for this?
[24/07/2024 15:27:11…
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Looks great! I'd suggest a couple of improvements:
1. I would recommend you build trees using amino acids, rather than nucleotides unless you know you are comparing very similar phages.
2. You co…
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Dear colleague,
I tried to use Diamond v2.0.1 to search protein alignments in my genome assembly. I run it on each scaffold respectively, because it is a huge plant genome. The size of several sca…
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Hi,
I have been using minimap2 for many genome to genome alignments and I have noticed an odd pattern.
If I take a large genome like a human genome and align (paf output) the whole chromosomes …
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Hi,
I am excited to test CONSENT with a nanopore dataset of about 60x of a 600Mb genome. Its about 2.8 mio reads (41 Gb total length). Unfortunately, all-vs-all alignments expands very fast and i …
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Hi Sigalign team,
Thanks for the amazing library for sequence alignment. I have a question related to aligning high similar sequences against a reference. If the read is always > some certain thre…