BioJulia/XAM.jl

Issues

• Add new interfaces for manipulating auxilary BAM fields

  #17 opened 6 years ago by jakobnissen
  2

• Support for Concurrent Access with XAM.jl: Reader/Writer Safety and Locking Considerations

  #76 opened 5 months ago by abhinavsns
  0

• Read sequences don't have overlapping with gene, but eachoverlap() reported there're.

  #75 opened 5 months ago by Xiao-Zhong
  5

• Has flag() renamed to flags()?

  #73 opened 8 months ago by egoecho
  1

• error when using SAM.auxdata(record)

  #72 opened 9 months ago by yr-neurospace
  1

• [WIP] convert SAM to BAM

  #61 opened 10 months ago by jonathanBieler
  1

• TagBot trigger issue

  #36 opened 4 years ago by JuliaTagBot
  5

• XAM compatibilty for Automa very old, please update?

  #64 opened a year ago by mashu
  0

• while loop got eof error

  #60 opened 2 years ago by junjunlab
  1

• Do you have the plan to add the pileup functions?

  #51 opened 2 years ago by panxiaoguang
  8

• Add eachoverlap(reader::Reader, refname::String)

  #59 opened 2 years ago by apraga
  0

• Correct way to add records to an array

  #58 opened 2 years ago by krishvishal
  1

• Switch to Oneflow

  #53 opened 2 years ago by MillironX
  3

• BoundsError in eachoverlap()

  #31 opened 2 years ago by yuifu
  14

• Add `index!(reader::Reader, path)`

  #49 opened 2 years ago by CiaranOMara
  0

• Make `seqname` consistent with BioJulia ecosystem

  #42 opened 3 years ago by CiaranOMara
  0

• eachoverlap running past end of stream

  #47 opened 4 years ago by rulixxx
  0

• Finding a map between observed bases and positions in the reference genome

  #46 opened 3 years ago by scikal
  4

• Feature Request: Conversion from `BioAlignments` to `SAM.Record`

  #45 opened 3 years ago by MillironX
  0

• can you add some functions to BAM.Reader?

  #39 opened 3 years ago by panxiaoguang
  2

• how to use @threads to use multithreads when reading BAM file

  #44 opened 3 years ago by panxiaoguang
  2

• Install ERROR: Unsatisfiable requirements detected for package BioSequences

  #41 opened 3 years ago by egoecho
  2

• Type instability when reading a BAM file

  #18 opened 7 years ago by phaverty
  3

• Position of unmapped mate

  #40 opened 4 years ago by CiaranOMara
  0

• Migrate from BGZFStreams to CodecBGZF

  #30 opened 4 years ago by jakobnissen
  2

• Broken with Automa 0.8.1

  #34 opened 4 years ago by dialvarezs
  5

• Browsing the documentation

  #33 opened 4 years ago by george-githinji
  1

• Converge SAM and BAM records

  #25 opened 4 years ago by jakobnissen
  3

• Performance of BAM.quality ?

  #21 opened 4 years ago by jonathanBieler
  3

• Various spec violations

  #24 opened 4 years ago by jakobnissen
  3

• Error when opening a BAM file generated by HISAT2 version 2.2.0

  #23 opened 4 years ago by yuifu
  3

• SAM.Reader file format error

  #20 opened 6 years ago by lcmmichielsen
  0

• Export and document some more things?

  #19 opened 7 years ago by phaverty
  1

• Inconsistent BAM flag accessor functions

  #16 opened 6 years ago by jakobnissen
  2

• Is there any way to check whether chromosome is available for a BAM file when using eachoverlap()?

  #11 opened 5 years ago by yuifu
  2

• Memory leak

  #10 opened 5 years ago by CiaranOMara
  1