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Hello,
I have an issue when I run snaptools align-paired-end. It fails to open bam file.
Code:
```
sample_name="pSCHKA_ATAC"
output="/mnt/beegfs/scratch/bioinfo_core/B22005_NADR_02/data_output/…
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1. It is not uncomming to have `N` bases in reads.
2. Also sometimes in bacteria we get other IUPAC codes in the _reference_ eg. `R`
How are these each handled in MapCaller?
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Hi,
It's really interesting tool to identify circle DNA from DNAseq data. But, recently, we are considered with the variety of circle DNA length and length of insenrtion of reads, which would influen…
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Hi !
I don't know if this tool is still maintained so I try my luck.
Background: Testing Realphy by running it with a set of 11 samples of P. aeruginosa. I want to merge the alignment results fo…
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Hi hisat-3n developers,
Thank you for building this wonderful aligner!
I am working on using hisat-3n to align all the single-cell DNA methylome and multiome data generated by the [snmC-seq2 (D…
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I am a new user of spaln， I hope to find homologous genes between different species through sequence alignment, firstly, I identified many new mRNA for my species, and identified the ORF amino acid se…
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Hi Ivan,
we tested Graphmap to align RNA-seq reads to the reference genome. For benchmark purposes, we tried to align the [reference transcripts](ftp://ftp.ensembl.org/pub/release-89/gtf/drosophil…
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The main reason I can see for generating view/output in SAM format is to use SAM/BAM downstream tools. However, I've not had success converting Diamond SAM output to BAM using samtools. Example Diamon…
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Hello, your cwDTW is very fast and valuable. I want to apply your method, but I need to make sure the accuracy of your tool first. In your paper, you mentioned signal labeling, the labeling difference…