0.1.1 - House Sparrow

Initial pre-release with core functionalities.

What's Changed

• Update versions by @Joon-Klaps in #117
• combine multiple functions of preclustering into one by @Joon-Klaps in #111
• 102 autodetect paired end by @Joon-Klaps in #109
• 65 select best ref by @Joon-Klaps in #107
• 105 out of memory during network cluster process on unclassified taxa by @Joon-Klaps in #106
• Continue making docs by @Joon-Klaps in #104
• 61 update docs make release by @Joon-Klaps in #103
• Handling singletons by @Joon-Klaps in #101
• Include bwamem mapper + multifasta support + virosaurs annotation by @Joon-Klaps in #100
• Fixing dev by @Joon-Klaps in #99
• Revert "49 samplesheet mapping constrains" by @Joon-Klaps in #97
• Add clean_output_on_error parameter and implement directory deletion … by @Joon-Klaps in #94
• Modules update by @Joon-Klaps in #92
• Annotate with mmseqs instead of blast by @Joon-Klaps in #91
• Making hybrid scaffold optional by @Joon-Klaps in #89
• Alignment free deduplication by @Joon-Klaps in #87
• template v2.12 by @Joon-Klaps in #86
• Add annotation of final contigs by @Joon-Klaps in #83
• Add "subject title" column to blast_df and update ext.args in modules… by @Joon-Klaps in #82
• 67 multiqc report for quast include assemblers by @Joon-Klaps in #81
• Joon klaps/include krona report by @Joon-Klaps in #79
• Add seqkit/replace module for string replacement in sequences by @Joon-Klaps in #77
• Add changelog configuration bot v0.1dev by @Joon-Klaps in #76
• Joon klaps/mpileup calling without reference by @Joon-Klaps in #71
• Add global prefix to publishDir paths by @Joon-Klaps in #70
• Add fastp deduplication option and accuracy parameter by @Joon-Klaps in #69
• 49 samplesheet mapping constrains by @Joon-Klaps in #60
• Update input parameters in make_bed_mask.nf, main.nf, and mem.nf by @Joon-Klaps in #59
• module version bump by @Joon-Klaps in #54
• Template update by @Joon-Klaps in #53