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154 Open 976 Closed
154 Open 976 Closed
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Issues list

Aligning Nanopore reads against a highly similar reference.
#1251 opened Oct 24, 2024 by coro1c
4
Minimap2 crash in the whole genome alignment
#1248 opened Oct 10, 2024 by xinzilan
3
Mappy on MacOS arm_neon.h error
#1235 opened Aug 15, 2024 by christopher-vollmers
Update website manpage
#1233 opened Aug 8, 2024 by mbhall88
1
Using Minimap2 to remove host reads. Unmapped read number is higher than input read number
#1228 opened Jul 10, 2024 by s4251484
segfault using --score-N option for ambiguous nucleotide score
#1226 opened Jun 28, 2024 by nrizzo
[mappy] DP alignment score in Alignment objects
#1202 opened Apr 26, 2024 by tomdstanton
Question about different mappings of same read
#1200 opened Apr 24, 2024 by nadjano
mapping HiFi reads using .mmi generated with -x map-ont
#1196 opened Apr 19, 2024 by Geil625
trying to understand the samtools flagstat file after alignment with minimap2
#1193 opened Apr 15, 2024 by sparthib
distinct minimizer count integer overflow with large reference fasta
#1192 opened Apr 14, 2024 by cjprybol
radix_sort_128x() produces unstable sorting output
#1191 opened Apr 12, 2024 by gsc74
Mappy segfault with long sequence and MD=True bug
#1183 opened Mar 25, 2024 by davidnewman02
2
Chaining score contributions from anchors seem to be capped by the anchor length, but the paper doesn't explain why question
#1125 opened Oct 24, 2023 by adamnovak
2
Command usage .
#1120 opened Oct 12, 2023 by dvirdi01
Order of operations in CIGAR enhancement
#1118 opened Sep 27, 2023 by baraaorabi
4
Mapping 2 wheat genomes
#1115 opened Sep 8, 2023 by mfruzan
1
Reference Weirdness
#1113 opened Sep 6, 2023 by jonathan-bravo
making clips more favourable than matching (and reducing secondary mappings)
#1112 opened Sep 1, 2023 by kcajj
Potential duplicate generation of RG tag on inputs with RG information
#1110 opened Aug 30, 2023 by SHuang-Broad
zd flag in paf in field 22 shared with rl
#1108 opened Aug 24, 2023 by gchevignon
1
Question regarding aligning two fastq files
#1105 opened Aug 18, 2023 by Le1223
1
Undefined behaviour
#1104 opened Aug 14, 2023 by armintoepfer
3
Adjusting penalty scores in the miniprot splice model feature-request
#1102 opened Aug 9, 2023 by RNA-ROB
1
Single base exon in splice alignment
#1099 opened Aug 8, 2023 by baraaorabi
1
ProTip! Exclude everything labeled bug with -label:bug.