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Issues list

Use of data prefetching?
#203 opened Jan 26, 2023 by jkbonfield
3
The possibility of MPI implementation of StrobeAlign feature New feature or request
#14 opened Feb 20, 2022 by jianshu93
Possible issue with mate CIGAR string
#18 opened Feb 24, 2022 by TDDB-limagrain
10
Alignment of long reads feature New feature or request
#24 opened Jun 1, 2022 by ksahlin
MAPQ scores feature New feature or request high priority Extra attention is needed
#25 opened Jun 1, 2022 by ksahlin
8
Base level alignment optimization Further information is requested
#26 opened Jun 1, 2022 by ksahlin
3
The index: 32bit hashes instead of 64bit optimization Further information is requested
#27 opened Jun 1, 2022 by ksahlin
4
Strobealign as reusable library? feature New feature or request
#39 opened Aug 17, 2022 by ksahlin
2
Benchmark writing SAM output and speed it up
#63 opened Sep 9, 2022 by marcelm
Consider adding uncompressed BAM as output format
#64 opened Sep 9, 2022 by marcelm
Two modes --fast (default) and --sensitive in strobealign? feature New feature or request
#135 opened Nov 1, 2022 by ksahlin
Extension alignments longer than 2000 bp
#170 opened Dec 5, 2022 by marcelm
Compiling on a M1 Mac bug Something isn't working
#2 opened Nov 22, 2021 by jianshu93
10
Determine whether re-estimating insert size distribution for each chunk changes accuracy
#171 opened Dec 5, 2022 by marcelm
@marcelm
1
Try other syncmer hash functions
#216 opened Jan 30, 2023 by marcelm
14
Run accuracy tests in CI
#218 opened Jan 31, 2023 by marcelm
A potential way to save space for genomes smaller than 2^32nt. optimization Further information is requested
#227 opened Feb 5, 2023 by ksahlin
6
Pangenome alignment
#232 opened Feb 8, 2023 by ekg
3
Request: executable binary
#253 opened Mar 7, 2023 by Subhayan18
2
Does --interleaved need to support mixed input?
#274 opened Apr 28, 2023 by marcelm
2
Additional benchmarks
#276 opened Apr 30, 2023 by ksahlin
Make rescue_mate more efficient by returning position in has_shared_substring?
#286 opened Jun 1, 2023 by ksahlin
1
Map paired-end reads that overlap each other’s 5' ends
#320 opened Jun 29, 2023 by marcelm
2
Duplicate alignments lead to spurious multimappers
#334 opened Sep 1, 2023 by marcelm
2
Closed syncmers with lower density
#429 opened Jun 15, 2024 by Daniel-Liu-c0deb0t
1
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