minimap2
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lh3
A versatile pairwise aligner for genomic and spliced nucleotide sequences
Hi, I apologize if this is an "off label" use case. I am trying to convert a STAR sam to a paf file using paftools.js I am doing this to...
I am trying to polish a genome assembly using flye-minimap2 (with ONT reads) but it crashes with the following error message: flye-minimap2: align.c:284: mm_update_extra: Assertion `qoff == r->qe - r->qs...
hello, @SaurabhKalikar @lh3 after installing and adding rustc binary folder to path, getting the error "issue: sh:1 ./scripts/build-rmi.linear_spline.linear.sh was not found" when I try to run build_rmi.sh.
[fast-contrib]: issue: learnt index generation does not run minimap2 with avx512 define by default
Hello, ./build_rmi.sh test/MT-human.fa map-ont does not run mm2 with avx512 by default. I understood this from the print statements "Using default hash lookup" from main.c. Is there a reason why...
Hi, I am trying to do chr alignment between two reference genomes but have been running into this issue. I am aligning chr1 to chr1 each time and requested 1800...
Good afternoon, It is written that "Minimap2 often misses small exons." I would like to know what is the size of these small exons, since I couldn't find this information...
If you align sequences using `mappy` and using `0x4000000` flag (use X and = instead of M in CIGAR), and then if you try to print hits or print `cigar_str`,...
Hi! Thanks for the nice tool! I have a question about the parameters for aligning corrected ONT reads to my assembly. My situation is that I used an assembler NECAT...
Hello everyone, I am using minimap2 with a fasta and a fastq files. The line that I am trying is the following: ./minimap2 -ax map-ont reference.fasta BC10.fastq > output.sam But...
