Updated contig filter

• updated low depth contigs filter: use a fraction of the mean depth rather than a fixed cutoff

2.7.0

• added platon for plasmid identification
• added bakta as alternative to prokka
• added aro filter for reports
• added stats assembly graph

2.6.0

• updated resistance workflow (combine data from BLDB and rgi for report)
• added gtdbtk for classification

2.5.2

• bug fix

2.5.1

• bug fixes

2.5.0

Added new QC to resistance workflow:

• extract 16S sequence and assign taxnonomy using Ezbiocloud database
• estimate contamination and completeness of genomes with checkM

2.4.1

• bug fixes
• report mutation for non synonymous SNPs

2.4.0

• update CARD/RGI to version 5.1.0-v3.0.8
• updated prokka version
• added tb-profiler

2.3.1

• updated prokka
• updated Walker MTB database

2.3.0

• Changed sample sheet format: paths to fastq files can now be reported in the sample sheet (columns R1 and R2). The "links" folder is not needed anymore.