Workflow: QIIME2 Step 2 (Deblur option)

Fetched 2024-03-29 09:24:22 GMT

QIIME2 Deblur, feature summaries, phylogenetic diversity tree, taxonomic analysis and ancom

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Inputs

ID Type Title Doc
sample_metadata File
deblur_trim_length Integer
ancom_collapse_level Integer
taxonomic_classifier File
demux_sequences_artifact File
ancom_filter_sample_query String

Steps

ID Runs Label Doc
deblur_sequences qiime2 Deblur detect/correct sequence data

Option 2: Deblur from https://docs.qiime2.org/2018.4/tutorials/moving-pictures/

phylogenetic_tree qiime2 create phylogenetic tree

Generate a tree for phylogenetic diversity analyses from https://docs.qiime2.org/2018.4/tutorials/moving-pictures/

taxonomic_analysis qiime2 explore sample taxonomic composition

Taxonomic analysis from https://docs.qiime2.org/2018.4/tutorials/moving-pictures/

ancom_diff_abundance qiime2 identify differentially abundant features

Differential abundance testing with ANCOM from https://docs.qiime2.org/2018.4/tutorials/moving-pictures/

feature_table_visualizations qiime2 create feature visual summaries

FeatureTable and FeatureData summaries from https://docs.qiime2.org/2018.4/tutorials/moving-pictures/

Outputs

ID Type Label Doc
rooted_tree File
deblur_stats File
deblur_table File
unrooted_tree File
deblur_rep_seqs File
filter_table_file File
taxa_barplot_file File
taxonomy_artifact File
deblur_filter_stats File
collapsed_table_file File
comp_gut_table_l6_file File
composition_table_file File
ancom_visualization_file File
deblur_demux_filter_stats File
deblur_filtered_sequences File
deblur_stats_visualization File
taxonomy_visualization_file File
masked_representative_sequences File
aligned_representative_sequences File
ancom_subject_16_visualization_file File
feature_table_summarize_visualization File
feature_table_tabulation_visualization File
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