removed brachy data, to be made available as a binary release instead

eead-csic-compbio · Jan 21, 2021 · 647a6b6 · 647a6b6
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diff --git a/...lusters/arb8075_alltaxa_no_sorghum_no_sylCor.list_algOMCL_e0_S80_Avg_identity_heatmap.pdf b/...lusters/arb8075_alltaxa_no_sorghum_no_sylCor.list_algOMCL_e0_S80_Avg_identity_heatmap.pdf
diff --git a/01_collapsed_core_clusters/blocks.log b/01_collapsed_core_clusters/blocks.log
diff --git a/01_collapsed_core_clusters/fasta.files.tar.bz2 b/01_collapsed_core_clusters/fasta.files.tar.bz2
diff --git a/02_blocks/README.txt b/02_blocks/README.txt
diff --git a/02_blocks/list_block_all_fasta.txt b/02_blocks/list_block_all_fasta.txt
diff --git a/02_blocks/list_congruent_fasta.txt b/02_blocks/list_congruent_fasta.txt
diff --git a/03_iqtree_treefiles/diploids.log b/03_iqtree_treefiles/diploids.log
diff --git a/03_iqtree_treefiles/iqtree_treefile/treefile.tar.bz2 b/03_iqtree_treefiles/iqtree_treefile/treefile.tar.bz2
diff --git a/03_iqtree_treefiles/list_root_tree_all_taxa.txt b/03_iqtree_treefiles/list_root_tree_all_taxa.txt
diff --git a/03_iqtree_treefiles/rooted_trees/list_congruent_trees.txt b/03_iqtree_treefiles/rooted_trees/list_congruent_trees.txt
diff --git a/03_iqtree_treefiles/rooted_trees/root.ph.tar.bz2 b/03_iqtree_treefiles/rooted_trees/root.ph.tar.bz2
diff --git a/03_iqtree_treefiles/table_diploids.tsv b/03_iqtree_treefiles/table_diploids.tsv
diff --git a/03_iqtree_treefiles/table_diploids_congruent.tsv b/03_iqtree_treefiles/table_diploids_congruent.tsv
diff --git a/04_congruent_and_labelled_files/label.fna.tar.bz2 b/04_congruent_and_labelled_files/label.fna.tar.bz2
diff --git a/04_congruent_and_labelled_files/label.ph.tar.bz2 b/04_congruent_and_labelled_files/label.ph.tar.bz2
diff --git a/04_congruent_and_labelled_files/label.reduced.fna.tar.bz2 b/04_congruent_and_labelled_files/label.reduced.fna.tar.bz2
diff --git a/04_congruent_and_labelled_files/lineage_codes_blocks_ABCDEFGHI.log b/04_congruent_and_labelled_files/lineage_codes_blocks_ABCDEFGHI.log
diff --git a/05_bootstrapping_analysis/list_files_extract_with_polyploid.txt b/05_bootstrapping_analysis/list_files_extract_with_polyploid.txt
diff --git a/05_bootstrapping_analysis/list_taxa/B422_A.list.txt b/05_bootstrapping_analysis/list_taxa/B422_A.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/B422_B.list.txt b/05_bootstrapping_analysis/list_taxa/B422_B.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/B422_C.list.txt b/05_bootstrapping_analysis/list_taxa/B422_C.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/B422_D.list.txt b/05_bootstrapping_analysis/list_taxa/B422_D.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/B422_E.list.txt b/05_bootstrapping_analysis/list_taxa/B422_E.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/B422_F.list.txt b/05_bootstrapping_analysis/list_taxa/B422_F.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/B422_G.list.txt b/05_bootstrapping_analysis/list_taxa/B422_G.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/B422_H.list.txt b/05_bootstrapping_analysis/list_taxa/B422_H.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/B422_I.list.txt b/05_bootstrapping_analysis/list_taxa/B422_I.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bboi_A.list.txt b/05_bootstrapping_analysis/list_taxa/Bboi_A.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bboi_B.list.txt b/05_bootstrapping_analysis/list_taxa/Bboi_B.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bboi_C.list.txt b/05_bootstrapping_analysis/list_taxa/Bboi_C.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bboi_D.list.txt b/05_bootstrapping_analysis/list_taxa/Bboi_D.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bboi_E.list.txt b/05_bootstrapping_analysis/list_taxa/Bboi_E.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bboi_F.list.txt b/05_bootstrapping_analysis/list_taxa/Bboi_F.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bboi_G.list.txt b/05_bootstrapping_analysis/list_taxa/Bboi_G.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bboi_H.list.txt b/05_bootstrapping_analysis/list_taxa/Bboi_H.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bboi_I.list.txt b/05_bootstrapping_analysis/list_taxa/Bboi_I.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bhyb_A.list.txt b/05_bootstrapping_analysis/list_taxa/Bhyb_A.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bhyb_B.list.txt b/05_bootstrapping_analysis/list_taxa/Bhyb_B.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bhyb_C.list.txt b/05_bootstrapping_analysis/list_taxa/Bhyb_C.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bhyb_D.list.txt b/05_bootstrapping_analysis/list_taxa/Bhyb_D.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bhyb_E.list.txt b/05_bootstrapping_analysis/list_taxa/Bhyb_E.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bhyb_F.list.txt b/05_bootstrapping_analysis/list_taxa/Bhyb_F.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bhyb_G.list.txt b/05_bootstrapping_analysis/list_taxa/Bhyb_G.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bhyb_H.list.txt b/05_bootstrapping_analysis/list_taxa/Bhyb_H.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bhyb_I.list.txt b/05_bootstrapping_analysis/list_taxa/Bhyb_I.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bmex_A.list.txt b/05_bootstrapping_analysis/list_taxa/Bmex_A.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bmex_B.list.txt b/05_bootstrapping_analysis/list_taxa/Bmex_B.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bmex_C.list.txt b/05_bootstrapping_analysis/list_taxa/Bmex_C.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bmex_D.list.txt b/05_bootstrapping_analysis/list_taxa/Bmex_D.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bmex_E.list.txt b/05_bootstrapping_analysis/list_taxa/Bmex_E.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bmex_F.list.txt b/05_bootstrapping_analysis/list_taxa/Bmex_F.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bmex_G.list.txt b/05_bootstrapping_analysis/list_taxa/Bmex_G.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bmex_H.list.txt b/05_bootstrapping_analysis/list_taxa/Bmex_H.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bmex_I.list.txt b/05_bootstrapping_analysis/list_taxa/Bmex_I.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bpho_A.list.txt b/05_bootstrapping_analysis/list_taxa/Bpho_A.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bpho_B.list.txt b/05_bootstrapping_analysis/list_taxa/Bpho_B.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bpho_C.list.txt b/05_bootstrapping_analysis/list_taxa/Bpho_C.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bpho_D.list.txt b/05_bootstrapping_analysis/list_taxa/Bpho_D.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bpho_E.list.txt b/05_bootstrapping_analysis/list_taxa/Bpho_E.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bpho_F.list.txt b/05_bootstrapping_analysis/list_taxa/Bpho_F.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bpho_G.list.txt b/05_bootstrapping_analysis/list_taxa/Bpho_G.list.txt
diff --git a/05_bootstrapping_analysis/list_taxa/Bpho_H.list.txt b/05_bootstrapping_analysis/list_taxa/Bpho_H.list.txt