dib-lab/kmerDecoder

Issues

• Investigate adding Syncmers extraction

  #43 opened 2 years ago by mr-eyes
  0

• Support parsing sourmash signatures

  #42 opened 2 years ago by mr-eyes
  0

• Murmur hasher is strand specific (should be canonical)

  #40 opened 2 years ago by mr-eyes
  0

• Clone but add a file

  #39 opened 2 years ago by mr-eyes
  0

• clone of kmerDecoder paramters in a new kmerDecoder

  #38 opened 2 years ago by mr-eyes
  0

• Comparator for kmerDecoder objects

  #37 opened 2 years ago by mr-eyes
  0

• Access the quality scores for fastq files

  #36 opened 3 years ago by shokrof
  1

• Murmur hash values are always zero!

  #33 opened 3 years ago by mr-eyes
  1

• Handle lowercase sequences

  #34 opened 3 years ago by mr-eyes
  1

• Handling non-ACGT chars

  #3 opened 5 years ago by mr-eyes
  2

• How kmerDecoder is handling special characters and non ACGT characters?

  #30 opened 3 years ago by shokrof
  1

• Extend Dayhoff kSize limit

  #31 opened 3 years ago by mr-eyes
  0

• setter and getter for chunksize

  #29 opened 3 years ago by shokrof
  0

• kmerDecoder is not threadsafe

  #28 opened 3 years ago by shokrof
  0

• memory leak in set_hashing_mode

  #26 opened 3 years ago by shokrof
  0

• Fix header files

  #27 opened 3 years ago by shokrof
  0

• add destructors to Hasher

  #24 opened 3 years ago by shokrof
  5

• Use ENUM for hash modes

  #4 opened 3 years ago by shokrof
  1

• Many reading/hashing options without a good interface.

  #22 opened 3 years ago by mr-eyes
  0

• docs

  #21 opened 3 years ago by mr-eyes
  0

• Reading BAM file as streams

  #18 opened 3 years ago by drtamermansour
  0

• Generating kmers from annotation files

  #19 opened 3 years ago by drtamermansour
  0

• Generating kmers from VCF file

  #20 opened 3 years ago by drtamermansour
  0

• Protein seqs parsing

  #11 opened 3 years ago by mr-eyes
  0

• Handling duplicate sequences

  #17 opened 3 years ago by mr-eyes
  0

• Performance drawback in decoding genomes

  #7 opened 3 years ago by mr-eyes
  1

• Allow decoding kmers from BAM files

  #9 opened 3 years ago by mr-eyes
  1

• Seqan3 Integration

  #10 opened 3 years ago by mr-eyes
  1

• Chunk size, kmers or seqs?

  #12 opened 3 years ago by mr-eyes
  4

• Chunk size, kmers or seqs?

  #13 opened 3 years ago by mr-eyes
  1

• Parse FASTX Sequences by kseq instead of Seqan

  #6 opened 4 years ago by mr-eyes
  0

• add destructors to kmers and other classes

  #5 opened 5 years ago by shokrof
  2