f5c-v1.1

• the experimental resquiggle module (contributed by @hiruna72) for signal to basecall alignment of DNA and RNA. Output format is documented here. Usage:

  Usage: f5c [OPTIONS] reads.fastq signals.blow5
  
  options:
     -t INT                     number of processing threads [8]
     -K INT                     batch size (max number of reads loaded at once) [512]
     -B FLOAT[K/M/G]            max number of bases loaded at once [5.0M]
     -h                         help
     -o FILE                    output to file [stdout]
     -x STR                     parameter profile to be used for better performance (always applied before other options)
                                e.g., laptop, desktop, hpc; see https://f5c.page.link/profiles for the full list
     -c                         print in paf format
     --verbose INT              verbosity level [0]
     --version                  print version
     --kmer-model FILE          custom nucleotide k-mer model file (format similar to test/r9-models/r9.4_450bps.nucleotide.6mer.template.model)
     --rna                      the dataset is direct RNA
  

  

• f5c can be now built without HDF5 support (./configure --disable-hdf5 && make) for anyone who wants to easily compile and work only with S/BLOW5 files

• new option --skip-slow-idx added to f5c index:, which disable f5c from building the .idx for the slow5 file (useful when a slow5 index is already available)

• error messages improved for slow5 index