lmdu/pyfastx

Issues

• Segmentation Fault (Core dumped)

  #81 opened 5 months ago by casparbein
  1

• TypeError: object of type 'Fastx' has no len()

  #84 opened 2 months ago by josephrich98
  1

• How to read two fastq files simultaneously?

  #82 opened 4 months ago by yc-pro
  1

• Fetch function can't identify numpy int

  #79 opened 8 months ago by Yuan2yuan2yuan
  1

• Pyfastx.read.raw mangling reads

  #75 opened 10 months ago by BioWilko
  8

• Sequence compostion

  #77 opened a year ago by kullrich
  2

• read.seq end with read.name when using pyfastx.Fastq in parsing long read FASTQ file

  #78 opened 10 months ago by QYanwei
  4

• Making invalid slices return an empty string instead of None

  #76 opened 10 months ago by fedarko
  1

• Building/installing `pyfastx` from source is not possible due to zlib upgrade

  #73 opened a year ago by aroon-color
  0

• Support Python 3.11 on conda?

  #64 opened a year ago by schorlton
  3

• Full Fasta info object without index building

  #72 opened a year ago by oschwengers
  1

• Pointer being freed was not allocated error with `memory_index=True`

  #71 opened a year ago by mihaitodor
  2

• Segmentation fault using .composition on each contig

  #67 opened a year ago by nextgenusfs
  2

• ValueError in test suite with pyfaidx 0.7.1

  #54 opened a year ago by emollier
  1

• small caps

  #30 opened a year ago by fmarletaz
  1

• Memory leak in Fastq read (probalby .quali)

  #70 opened a year ago by pfrstg
  2

• Select index output folder

  #45 opened a year ago by MaWeffm
  2

• Cannot read input file with Chinese text in filename

  #66 opened a year ago by meisproject
  2

• some sequences are missing in pyfastx.Fasta object

  #41 opened 3 years ago by dawnmy
  4

• SystemError: <class 'Fasta'> returned a result with an error set; on loading gzipped fasta

  #63 opened 2 years ago by jolo2486
  2

• How to get antisense sequence from any strings ?

  #69 opened a year ago by galaxy001
  1

• [Feature Request] Read from stdin option

  #48 opened 2 years ago by jolespin
  3

• Unicode error reading large fastq with index?

  #65 opened 2 years ago by schorlton
  2

• Unable to index gzipped fasta file by name: KeyError: 'chrY does not exist in fasta file'

  #62 opened 2 years ago by jolo2486
  1

• Fastx parser vs Fasta/Fastq parsers

  #61 opened 2 years ago by schorlton
  2

• Import Error

  #60 opened 2 years ago by jpizzollo
  3

• [Feature Request] Get barcodes from Fastx function

  #59 opened 2 years ago by hotsoupisgood
  1

• UnicodeDecodeError: 'utf-8' codec can't decode bytes in position

  #56 opened 2 years ago by Muchmorepig
  4

• How to safely close file handles with Fastx?

  #27 opened 2 years ago by bjpop
  3

• Add support to release aarch64 wheels

  #34 opened 2 years ago by odidev
  1

• Unexpected behavior when a Sequence object is returned from a function

  #36 opened 2 years ago by EnzoAndree
  2

• Iterating over sequences without comments results in comments from previous records

  #37 opened 2 years ago by telatin
  4

• Failure to properly parse ENCODE's GRCh38 reference

  #39 opened 2 years ago by sjgosai
  4

• Corrupt quality values

  #44 opened 2 years ago by mbassalbioinformatics
  2

• fasta records that don't have comments have comments attached to them after conversion to tabular format

  #49 opened 2 years ago by olgatsiouri1996
  2

• Support xz-compressed files

  #46 opened 2 years ago by joverlee521
  2

• Does current pyfastx support py2.7 version?

  #57 opened 2 years ago by Wan-Yifei
  2

• [BUG] Unable to get sequences after encountering `KeyError`

  #50 opened 2 years ago by joverlee521
  3

• Python 3.10 compatiblity

  #47 opened 2 years ago by jolespin
  2

• streaming multiple fastq files at the same time?

  #42 opened 3 years ago by Irenexzwen
  1

• SystemError with fa.fetch

  #40 opened 3 years ago by imk1
  1

• why it append "phred" behind read.name

  #38 opened 3 years ago by zhang570221322
  1

• Multiprocessing with apply_async does not work

  #33 opened 4 years ago by sanjaysrikakulam
  6

• Possible memory leak in keys

  #32 opened 3 years ago by sanjaysrikakulam
  4

• Slice feature for keys

  #31 opened 3 years ago by sanjaysrikakulam
  4

• 处理fastq文件获得序列全名

  #29 opened 4 years ago by flystar233
  2

• Segfault when loading index from multiple processes

  #25 opened 4 years ago by scharch
  4

• Extend reverse, complement, and antisense to fastq?

  #24 opened 4 years ago by scharch
  3

• Segfault when using full_name=True for Fasta iteration

  #26 opened 4 years ago by cmorganl
  6

• The sample function with option --sequential-read went wrong

  #28 opened 4 years ago by YanCCscu
  1