Comparison of re-called Albacore and Flappie sequences from E. coli K-12 MG1655

<p>I used the first few (545) original Fast5 files from Nick Loman&#39;s ultra-long read E. coli K-12 MG1655 R9.4 sequencing run. See the blog post <a href="http://lab.loman.net/2017/03/09/ultrareads-for-nanopore/">here</a>. Direct link to the complete fast5 dataset <a href="http://s3.climb.ac.uk/nanopore/Ecoli_MinKNOW_1.4_RAD002_Sambrook.tar">here</a>.</p> <p>Program versions:</p> <p>* Albacore 2.1.10</p> <p>* Flappie 1.0.0-0048dfd</p> <p>The example alignment was carried out using seaview (1:4.6.1.2-2), and visualised using spiralign from my <a href="https://gitlab.com/gringer/bioinfscripts/">bioinfscripts</a> repository (see source code in this archive):</p> <p>&nbsp;&nbsp;&nbsp; $ spiralign.r -size 2000x2000 -noalign -noborder -loops 12.75 -outfmt png -type nucl -title &quot;Flappie vs Albacore\n(Ecoli_MG1655)&quot; aligned_all_ddea.fa</p> <p>Flappie was distributed across multiple processing threads using GNU parallel:</p> <p>&nbsp;&nbsp;&nbsp; $ ls Ecoli_MinKNOW_1.4_RAD002_Sambrook/0/nanopore2_20170301_FNFAF09967_MN17024_mux_scan_170301_MG1655_PC_RAD002_76964_ch* | parallel --group -j 10 -L 1 ~/install/flappie/flappie | gzip &gt; called_flappie_Ecoli_MinKNOW_1.4_RAD002_Sambrook.fq.gz</p> <p>&nbsp;</p> <p>Tange (2011): GNU Parallel - The Command-Line Power Tool, ;login: The USENIX Magazine, February 2011:42-47.</p>