nf-core/multiplesequencealign v1.1.0 - Nova Icaria

Minor release of nf-core/multiplesequencealign.

This fixes few bugs, improves the documentation and adds the possibility to avoid the samplesheet and toolsheet and pass direclty the input files and tools directives.

Credits

Special thanks to the following for their contributions to the release:

• Jose Espinosa Carrasco
• Júlia Mir Pedrol

Thank you to everyone else that has contributed by reporting bugs, enhancements or in any other way, shape or form.

Enhancements & fixes

• [#174] - Add the chaining of proteinfold output to MSA input.
• [#177] - Add MAFFT guidetree.
• [#179] - Add visualisation subworkflow and final csv merging onComplete.
• [#189] - Add GPU support and the alternatives to samplesheet and toolsheet (aligner, seqs)
• [#192] - Update documentation and fix bug on the merging of the csv file onComplete.

Parameters

Old parameter	New parameter
	--seqs
	--pdb_dir
	--aligner
	--args_aligner
	--tree
	--args_tree
	--skip_validation
	--skip_preprocessing

nf-core/multiplesequencealign v1.0.0 - Somorrostro

Initial release of nf-core/multiplesequencealign.

Added

• Collection of input file statistics (percentage similarity, number and length of sequences, PLDDT)
• Guide tree rendering (CLUSTALO_GUIDETREE, FAMSA_GUIDETREE)
• Alignment (CLUSTALO, FAMSA, KALIGN, LEARNMSA, MAFFT, MAGUS, MUSCLE5, TCOFFEE, REGRESSIVE, UPP, 3DCOFFEE, MTMALIGN, FOLDMANSON)
• Computation of the consensus alignment (M-COFFEE)
• Evaluation of the alignments (TC,SP,TCS,iRMSD,#GAPS)
• Report generation (MultiQC, Shiny App)

Contributed by: @luisas @JoseEspinosa @lrauschning @alessiovignoli @mirpedrol @maxulysse