jeffdaily/parasail

Issues

• Indexing error in alphabet_aliases

  #107 opened 15 hours ago by shenker
  1

• figure out the similarity percentage of alignment

  #106 opened 22 days ago by Huilin-Li
  0

• Comments/ questions about fatal flaw in gap penalties for my use cases

  #105 opened 2 months ago by rcedgar
  2

• Can DNA alignment traceback result comply with HGVS 3' rule?

  #104 opened 8 months ago by GooJan
  7

• choosing among same-score alignments

  #103 opened 9 months ago by notestaff
  5

• MAPQ should be 0 for unmapped reads

  #100 opened a year ago by palakpsheth
  4

• segfaults when using (some) profile functions

  #99 opened a year ago by brendanf
  9

• Out-of-bounds memory corruption

  #98 opened a year ago by stupendousMan
  0

• semi-global `parasail_sg_dx` not reporting `beg_ref` correctly

  #97 opened a year ago by nh13
  0

• -t 24 not working threading

  #96 opened 2 years ago by jianshu93
  21

• sg_qe_de – alignment extension?

  #95 opened 2 years ago by h-2
  3

• Different gap penalty for template and query

  #79 opened 4 years ago by Nil-Fernandez-Lojo
  1

• Kind of CIGAR

  #93 opened 2 years ago by c0ntradicti0n
  2

• Parasail install failing on M1 Pro

  #89 opened 3 years ago by leecbaker
  3

• Failure linking against OpenMP on macOS

  #91 opened 3 years ago by jvkersch
  0

• Cross-compiling for arm64 on macOS (x86_64 host)

  #90 opened 3 years ago by rainbowgoblin
  4

• CIGAR in Banded Global Alignment

  #88 opened 3 years ago by zulal-b
  0

• configuration error on ubuntu

  #87 opened 3 years ago by kristin-watchmaker
  4

• Parasail on recent M1 Mac?

  #85 opened 3 years ago by pb-cdunn
  3

• parasail_aligner: NW - output all best alignments

  #86 opened 3 years ago by psheth-twist
  2

• Attempt to to align an empty string appears to cause a Floating point exception

  #84 opened 3 years ago by rsharris
  6

• install parasail on Mac

  #83 opened 4 years ago by sunway1999
  1

• Failed to build parasail on Mac OSx

  #81 opened 4 years ago by ksahlin
  3

• detection of AVX512

  #80 opened 4 years ago by changchengx
  1

• API request: return NULL from parasail_sequences_from_file upon error?

  #71 opened 4 years ago by jvkersch
  4

• Assertion error

  #76 opened 4 years ago by cnk113
  2

• run time of app not scaling linearly with input file length

  #75 opened 5 years ago by christakahashi
  5

• Definition of 'alignment score'

  #74 opened 5 years ago by jvivian-atreca
  2

• Parasail-2.4 is slower

  #73 opened 5 years ago by nahmedraja
  2

• License clarification

  #72 opened 5 years ago by rekado
  1

• Feature request: option for no gap penalty in target start and end of both target/query

  #69 opened 5 years ago by traversc
  15

• ld

  #70 opened 5 years ago by traversc
  0

• Bug in CIGAR Construction

  #67 opened 5 years ago by nlfortier
  1

• MSP

  #68 opened 5 years ago by rmhubley
  1

• Question about gap open penalty for different vectorizations.

  #64 opened 5 years ago by jvkersch
  8

• Feature request: convex gap penalty

  #66 opened 5 years ago by ksahlin
  3

• T and U are treated as mismatching nucleotides.

  #58 opened 5 years ago by Elmohound
  5

• support for alphabets with more than 256 symbols

  #65 opened 6 years ago by hernot
  6

• support msys, mingw

  #62 opened 6 years ago by jeffdaily
  1

• CMake on MacOS; OSError: dlopen(libparasail.dylib, 6): image not found

  #63 opened 6 years ago by callumparr
  5

• Querying version of installed parasail?

  #61 opened 6 years ago by HenrikBengtsson
  8

• Question: API for getting aligned sequences, number of indels?

  #60 opened 6 years ago by jvkersch
  7

• Support for ARM64?

  #59 opened 6 years ago by philres
  19

• matches between uppercase and lowercase symbols are treated as mismatches

  #57 opened 6 years ago by Elmohound
  6

• test_isa informs me that avx2 is not available, but it should be

  #50 opened 6 years ago by Elmohound
  9

• Question: does "sat" function cause the solution width to go higher than 16?

  #54 opened 6 years ago by Elmohound
  1

• Crashes of parasail_aligner running under window cause an error message box to be displayed

  #53 opened 6 years ago by Elmohound
  15

• readme.md erroneously refers to "sse4" rather than "sse41"

  #51 opened 6 years ago by Elmohound
  0

• Traceback output does not get sent to file specified as argument to -g option

  #52 opened 6 years ago by Elmohound
  3

• parasail_aligner need not show any residues beyond the aligned segments when running a local alignment (SW)

  #55 opened 6 years ago by Elmohound
  4