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Name		Name	Last commit message	Last commit date
parent directory ..
abricate_run.mdx		abricate_run.mdx
abricate_summary.mdx		abricate_summary.mdx
abritamr_run.mdx		abritamr_run.mdx
agrvate.mdx		agrvate.mdx
amrfinderplus_run.mdx		amrfinderplus_run.mdx
amrfinderplus_update.mdx		amrfinderplus_update.mdx
ariba_getref.mdx		ariba_getref.mdx
ariba_run.mdx		ariba_run.mdx
bactopia_assembler.mdx		bactopia_assembler.mdx
bactopia_datasets.mdx		bactopia_datasets.mdx
bactopia_gather.mdx		bactopia_gather.mdx
bactopia_qc.mdx		bactopia_qc.mdx
bactopia_sketcher.mdx		bactopia_sketcher.mdx
bactopia_teton.mdx		bactopia_teton.mdx
bakta_download.mdx		bakta_download.mdx
bakta_run.mdx		bakta_run.mdx
blast_blastn.mdx		blast_blastn.mdx
blast_blastp.mdx		blast_blastp.mdx
blast_blastx.mdx		blast_blastx.mdx
blast_tblastn.mdx		blast_tblastn.mdx
blast_tblastx.mdx		blast_tblastx.mdx
bracken.mdx		bracken.mdx
btyper3.mdx		btyper3.mdx
busco.mdx		busco.mdx
checkm2_download.mdx		checkm2_download.mdx
checkm2_predict.mdx		checkm2_predict.mdx
checkm_lineagewf.mdx		checkm_lineagewf.mdx
clermontyping.mdx		clermontyping.mdx
clonalframeml.mdx		clonalframeml.mdx
csvtk_concat.mdx		csvtk_concat.mdx
csvtk_join.mdx		csvtk_join.mdx
deacon_fetch.mdx		deacon_fetch.mdx
deacon_filter.mdx		deacon_filter.mdx
deacon_index.mdx		deacon_index.mdx
defensefinder_run.mdx		defensefinder_run.mdx
defensefinder_update.mdx		defensefinder_update.mdx
ectyper.mdx		ectyper.mdx
eggnog_download.mdx		eggnog_download.mdx
eggnog_mapper.mdx		eggnog_mapper.mdx
emmtyper.mdx		emmtyper.mdx
fastani.mdx		fastani.mdx
gamma.mdx		gamma.mdx
genomedl.mdx		genomedl.mdx
genotyphi_parse.mdx		genotyphi_parse.mdx
gigatyper.mdx		gigatyper.mdx
gtdbtk_classifywf.mdx		gtdbtk_classifywf.mdx
gtdbtk_download.mdx		gtdbtk_download.mdx
gubbins.mdx		gubbins.mdx
hicap.mdx		hicap.mdx
hpsuissero.mdx		hpsuissero.mdx
index.mdx		index.mdx
iqtree.mdx		iqtree.mdx
ismapper.mdx		ismapper.mdx
kleborate.mdx		kleborate.mdx
kraken2.mdx		kraken2.mdx
legsta.mdx		legsta.mdx
lissero.mdx		lissero.mdx
mash_dist.mdx		mash_dist.mdx
mashtree.mdx		mashtree.mdx
mcroni.mdx		mcroni.mdx
meningotype.mdx		meningotype.mdx
merlin_dist.mdx		merlin_dist.mdx
midas_download.mdx		midas_download.mdx
midas_species.mdx		midas_species.mdx
mlst.mdx		mlst.mdx
mobsuite_recon.mdx		mobsuite_recon.mdx
mykrobe_predict.mdx		mykrobe_predict.mdx
ncbigenomedownload.mdx		ncbigenomedownload.mdx
ngmaster.mdx		ngmaster.mdx
nohuman_download.mdx		nohuman_download.mdx
nohuman_run.mdx		nohuman_run.mdx
panaroo_run.mdx		panaroo_run.mdx
pasty.mdx		pasty.mdx
pbptyper.mdx		pbptyper.mdx
phispy.mdx		phispy.mdx
pirate.mdx		pirate.mdx
plasmidfinder.mdx		plasmidfinder.mdx
pneumocat.mdx		pneumocat.mdx
prokka.mdx		prokka.mdx
quast.mdx		quast.mdx
rgi_heatmap.mdx		rgi_heatmap.mdx
rgi_main.mdx		rgi_main.mdx
roary.mdx		roary.mdx
sccmec.mdx		sccmec.mdx
scoary.mdx		scoary.mdx
seqsero2.mdx		seqsero2.mdx
seroba_run.mdx		seroba_run.mdx
shigapass.mdx		shigapass.mdx
shigatyper.mdx		shigatyper.mdx
shigeifinder.mdx		shigeifinder.mdx
sistr.mdx		sistr.mdx
snippy_core.mdx		snippy_core.mdx
snippy_run.mdx		snippy_run.mdx
snpdists.mdx		snpdists.mdx
spatyper.mdx		spatyper.mdx
srahumanscrubber_initdb.mdx		srahumanscrubber_initdb.mdx
srahumanscrubber_scrub.mdx		srahumanscrubber_scrub.mdx
ssuissero.mdx		ssuissero.mdx
staphopiasccmec.mdx		staphopiasccmec.mdx
staphscan.mdx		staphscan.mdx
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