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One is not enough: On the effects of reference genome for t..:

Valiente-Mullor, Carlos ; Beamud, Beatriz ; Ansari, Iván...
PLOS Computational Biology. 17 (2021) 1 - p. e1008678 , 2021

Link: https://doi.org/10.1371/..

2

Population Genomics of Human Viruses:

, In: Population Genomics: Microorganisms; Population Genomics,

González-Candelas, Fernando ; Patiño-Galindo, Juan Ángel ; Valiente-Mullor, Carlos - p. 267-296 , 2018

Link: https://doi.org/10.1007/..

3

One is not enough: On the effects of reference genome for t..:

Carlos Valiente-Mullor ; Beatriz Beamud ; Iván Ansari...
https://doi.org/10.1371/journal.pcbi.1008678. , 2021

Link: https://doi.org/10.1371/..

4

Proportion of significant (P<0.05) comparisons depending on..:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/dataset/Proportion_of_significant_P_0_05_comparisons_depending_on_reference_choice_/13652873. , 2021

Link: https://doi.org/10.1371/..

5

Comparison of Robinson-Foulds (RF) and matching clusters (M..:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/figure/Comparison_of_Robinson-Foulds_RF_and_matching_clusters_MC_normalized_distances_calculated_between_trees_from_the_same_species_/13652849. , 2021

Link: https://doi.org/10.1371/..

6

'Phylogenetic trees per reference and species:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/dataset/_Phylogenetic_trees_per_reference_and_species_/13652831. , 2021

Link: https://doi.org/10.1371/..

7

Core genome trees of the complete whole-genome sequences do..:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/journal_contribution/Core_genome_trees_of_the_complete_whole-genome_sequences_downloaded_from_GenBank_/13652804. , 2021

Link: https://doi.org/10.1371/..

8

Impact of reference choice on phylogenetic trees of S . mar..:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/figure/Impact_of_reference_choice_on_phylogenetic_trees_of_i_S_i_i_marcescens_i_/13652864. , 2021

Link: https://doi.org/10.1371/..

9

ANI (%) calculated between the selected reference genomes:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/dataset/ANI_calculated_between_the_selected_reference_genomes_/13652813. , 2021

Link: https://doi.org/10.1371/..

10

Distribution of proportion of mapped reads depending on ref..:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/figure/Distribution_of_proportion_of_mapped_reads_depending_on_reference_choice_/13652837. , 2021

Link: https://doi.org/10.1371/..

11

RF and MC distances:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/dataset/RF_and_MC_distances_/13652822. , 2021

Link: https://doi.org/10.1371/..

12

Impact of reference choice on phylogenetic trees of L . pne..:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/figure/Impact_of_reference_choice_on_phylogenetic_trees_of_i_L_i_i_pneumophila_i_/13652855. , 2021

Link: https://doi.org/10.1371/..

13

Descriptive statistics of topological distances per species:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/dataset/Descriptive_statistics_of_topological_distances_per_species_/13652876. , 2021

Link: https://doi.org/10.1371/..

14

Overview of the workflow used:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/figure/Overview_of_the_workflow_used_/13652834. , 2021

Link: https://doi.org/10.1371/..

15

Impact of reference choice on phylogenetic trees of K . pne..:

Carlos Valiente-Mullor (10042112) ; Beatriz Beamud (10042115) ; Iván Ansari (10042118)...
https://figshare.com/articles/figure/Impact_of_reference_choice_on_phylogenetic_trees_of_i_K_i_i_pneumoniae_i_/13652858. , 2021

Link: https://doi.org/10.1371/..

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