From 86afa61b12d0a29b0f65b184f5d3573df0ae2c3a Mon Sep 17 00:00:00 2001 From: Waldir Leoncio Date: Mon, 19 Oct 2020 08:24:55 +0200 Subject: [PATCH] Moved dataset locaiton --- ...A sequence data in concatenated Excel format.xls | Bin ...ata in GENEPOP format for Trained clustering.txt | 0 ... for the spatial clustering of DNA sequences.txt | 0 ...ample coordinates for the spatial clustering.txt | 0 ...format for clustering of diploid individuals.txt | 0 ...format for clustering of haploid individuals.txt | 0 ...mat for clustering of tetraploid individuals.txt | 0 ...group-wise clustering of diploid individuals.txt | 0 ...group-wise clustering of haploid individuals.txt | 0 ...up-wise clustering of tetraploid individuals.txt | 0 ...rmat for clustering of haploid individuals.fasta | 0 ...equence file for clustering with linked loci.txt | 0 ...equence file for clustering with linked loci.txt | 0 ...equence file for clustering with linked loci.txt | 0 ... fasta formatted sequence file for gene recA.txt | 0 ...s for a concatenated sequence in BAPS format.txt | 0 ...analysis based on user-specified populations.txt | 0 .../Example of an MLST profile file for 6 genes.txt | 0 .../Example of hierBAPS input in FASTA format.fa | 0 .../Example of hierBAPS input in XLS format.xls | Bin ...dex file to be used with BAPS formatted data.txt | 0 ...mes file to be used with BAPS formatted data.txt | 0 ...ata in GENEPOP format for Trained clustering.txt | 0 ...ata in GENEPOP format for Trained clustering.txt | 0 ...st data in XLS format for Trained clustering.xls | Bin ...ng data in XLS format for Trained clustering.xls | Bin {data => inst/ext}/ExamplesDataFormatting/Notes.md | 0 27 files changed, 0 insertions(+), 0 deletions(-) rename {data => inst/ext}/ExamplesDataFormatting/Example MLST DNA sequence data in concatenated Excel format.xls (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example baseline data in GENEPOP format for Trained clustering.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example coordinates for the spatial clustering of DNA sequences.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example coordinates for the spatial clustering.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example data in BAPS format for clustering of diploid individuals.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example data in BAPS format for clustering of haploid individuals.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example data in BAPS format for clustering of tetraploid individuals.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of diploid individuals.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of haploid individuals.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of tetraploid individuals.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example data in FASTA format for clustering of haploid individuals.fasta (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example of a BAPS formatted diploid sequence file for clustering with linked loci.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example of a BAPS formatted haploid sequence file for clustering with linked loci.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example of a BAPS formatted tetraploid sequence file for clustering with linked loci.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example of a fasta formatted sequence file for gene recA.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example of a file specifying gene boundaries for a concatenated sequence in BAPS format.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example of a partition file for admixture analysis based on user-specified populations.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example of an MLST profile file for 6 genes.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example of hierBAPS input in FASTA format.fa (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example of hierBAPS input in XLS format.xls (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example of sample population index file to be used with BAPS formatted data.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example of sample population names file to be used with BAPS formatted data.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example pre-grouped sample data in GENEPOP format for Trained clustering.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example sample data in GENEPOP format for Trained clustering.txt (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example test data in XLS format for Trained clustering.xls (100%) rename {data => inst/ext}/ExamplesDataFormatting/Example training data in XLS format for Trained clustering.xls (100%) rename {data => inst/ext}/ExamplesDataFormatting/Notes.md (100%) diff --git a/data/ExamplesDataFormatting/Example MLST DNA sequence data in concatenated Excel format.xls b/inst/ext/ExamplesDataFormatting/Example MLST DNA sequence data in concatenated Excel format.xls similarity index 100% rename from data/ExamplesDataFormatting/Example MLST DNA sequence data in concatenated Excel format.xls rename to inst/ext/ExamplesDataFormatting/Example MLST DNA sequence data in concatenated Excel format.xls diff --git a/data/ExamplesDataFormatting/Example baseline data in GENEPOP format for Trained clustering.txt b/inst/ext/ExamplesDataFormatting/Example baseline data in GENEPOP format for Trained clustering.txt similarity index 100% rename from data/ExamplesDataFormatting/Example baseline data in GENEPOP format for Trained clustering.txt rename to inst/ext/ExamplesDataFormatting/Example baseline data in GENEPOP format for Trained clustering.txt diff --git a/data/ExamplesDataFormatting/Example coordinates for the spatial clustering of DNA sequences.txt b/inst/ext/ExamplesDataFormatting/Example coordinates for the spatial clustering of DNA sequences.txt similarity index 100% rename from data/ExamplesDataFormatting/Example coordinates for the spatial clustering of DNA sequences.txt rename to inst/ext/ExamplesDataFormatting/Example coordinates for the spatial clustering of DNA sequences.txt diff --git a/data/ExamplesDataFormatting/Example coordinates for the spatial clustering.txt b/inst/ext/ExamplesDataFormatting/Example coordinates for the spatial clustering.txt similarity index 100% rename from data/ExamplesDataFormatting/Example coordinates for the spatial clustering.txt rename to inst/ext/ExamplesDataFormatting/Example coordinates for the spatial clustering.txt diff --git a/data/ExamplesDataFormatting/Example data in BAPS format for clustering of diploid individuals.txt b/inst/ext/ExamplesDataFormatting/Example data in BAPS format for clustering of diploid individuals.txt similarity index 100% rename from data/ExamplesDataFormatting/Example data in BAPS format for clustering of diploid individuals.txt rename to inst/ext/ExamplesDataFormatting/Example data in BAPS format for clustering of diploid individuals.txt diff --git a/data/ExamplesDataFormatting/Example data in BAPS format for clustering of haploid individuals.txt b/inst/ext/ExamplesDataFormatting/Example data in BAPS format for clustering of haploid individuals.txt similarity index 100% rename from data/ExamplesDataFormatting/Example data in BAPS format for clustering of haploid individuals.txt rename to inst/ext/ExamplesDataFormatting/Example data in BAPS format for clustering of haploid individuals.txt diff --git a/data/ExamplesDataFormatting/Example data in BAPS format for clustering of tetraploid individuals.txt b/inst/ext/ExamplesDataFormatting/Example data in BAPS format for clustering of tetraploid individuals.txt similarity index 100% rename from data/ExamplesDataFormatting/Example data in BAPS format for clustering of tetraploid individuals.txt rename to inst/ext/ExamplesDataFormatting/Example data in BAPS format for clustering of tetraploid individuals.txt diff --git a/data/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of diploid individuals.txt b/inst/ext/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of diploid individuals.txt similarity index 100% rename from data/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of diploid individuals.txt rename to inst/ext/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of diploid individuals.txt diff --git a/data/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of haploid individuals.txt b/inst/ext/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of haploid individuals.txt similarity index 100% rename from data/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of haploid individuals.txt rename to inst/ext/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of haploid individuals.txt diff --git a/data/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of tetraploid individuals.txt b/inst/ext/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of tetraploid individuals.txt similarity index 100% rename from data/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of tetraploid individuals.txt rename to inst/ext/ExamplesDataFormatting/Example data in BAPS format for group-wise clustering of tetraploid individuals.txt diff --git a/data/ExamplesDataFormatting/Example data in FASTA format for clustering of haploid individuals.fasta b/inst/ext/ExamplesDataFormatting/Example data in FASTA format for clustering of haploid individuals.fasta similarity index 100% rename from data/ExamplesDataFormatting/Example data in FASTA format for clustering of haploid individuals.fasta rename to inst/ext/ExamplesDataFormatting/Example data in FASTA format for clustering of haploid individuals.fasta diff --git a/data/ExamplesDataFormatting/Example of a BAPS formatted diploid sequence file for clustering with linked loci.txt b/inst/ext/ExamplesDataFormatting/Example of a BAPS formatted diploid sequence file for clustering with linked loci.txt similarity index 100% rename from data/ExamplesDataFormatting/Example of a BAPS formatted diploid sequence file for clustering with linked loci.txt rename to inst/ext/ExamplesDataFormatting/Example of a BAPS formatted diploid sequence file for clustering with linked loci.txt diff --git a/data/ExamplesDataFormatting/Example of a BAPS formatted haploid sequence file for clustering with linked loci.txt b/inst/ext/ExamplesDataFormatting/Example of a BAPS formatted haploid sequence file for clustering with linked loci.txt similarity index 100% rename from data/ExamplesDataFormatting/Example of a BAPS formatted haploid sequence file for clustering with linked loci.txt rename to inst/ext/ExamplesDataFormatting/Example of a BAPS formatted haploid sequence file for clustering with linked loci.txt diff --git a/data/ExamplesDataFormatting/Example of a BAPS formatted tetraploid sequence file for clustering with linked loci.txt b/inst/ext/ExamplesDataFormatting/Example of a BAPS formatted tetraploid sequence file for clustering with linked loci.txt similarity index 100% rename from data/ExamplesDataFormatting/Example of a BAPS formatted tetraploid sequence file for clustering with linked loci.txt rename to inst/ext/ExamplesDataFormatting/Example of a BAPS formatted tetraploid sequence file for clustering with linked loci.txt diff --git a/data/ExamplesDataFormatting/Example of a fasta formatted sequence file for gene recA.txt b/inst/ext/ExamplesDataFormatting/Example of a fasta formatted sequence file for gene recA.txt similarity index 100% rename from data/ExamplesDataFormatting/Example of a fasta formatted sequence file for gene recA.txt rename to inst/ext/ExamplesDataFormatting/Example of a fasta formatted sequence file for gene recA.txt diff --git a/data/ExamplesDataFormatting/Example of a file specifying gene boundaries for a concatenated sequence in BAPS format.txt b/inst/ext/ExamplesDataFormatting/Example of a file specifying gene boundaries for a concatenated sequence in BAPS format.txt similarity index 100% rename from data/ExamplesDataFormatting/Example of a file specifying gene boundaries for a concatenated sequence in BAPS format.txt rename to inst/ext/ExamplesDataFormatting/Example of a file specifying gene boundaries for a concatenated sequence in BAPS format.txt diff --git a/data/ExamplesDataFormatting/Example of a partition file for admixture analysis based on user-specified populations.txt b/inst/ext/ExamplesDataFormatting/Example of a partition file for admixture analysis based on user-specified populations.txt similarity index 100% rename from data/ExamplesDataFormatting/Example of a partition file for admixture analysis based on user-specified populations.txt rename to inst/ext/ExamplesDataFormatting/Example of a partition file for admixture analysis based on user-specified populations.txt diff --git a/data/ExamplesDataFormatting/Example of an MLST profile file for 6 genes.txt b/inst/ext/ExamplesDataFormatting/Example of an MLST profile file for 6 genes.txt similarity index 100% rename from data/ExamplesDataFormatting/Example of an MLST profile file for 6 genes.txt rename to inst/ext/ExamplesDataFormatting/Example of an MLST profile file for 6 genes.txt diff --git a/data/ExamplesDataFormatting/Example of hierBAPS input in FASTA format.fa b/inst/ext/ExamplesDataFormatting/Example of hierBAPS input in FASTA format.fa similarity index 100% rename from data/ExamplesDataFormatting/Example of hierBAPS input in FASTA format.fa rename to inst/ext/ExamplesDataFormatting/Example of hierBAPS input in FASTA format.fa diff --git a/data/ExamplesDataFormatting/Example of hierBAPS input in XLS format.xls b/inst/ext/ExamplesDataFormatting/Example of hierBAPS input in XLS format.xls similarity index 100% rename from data/ExamplesDataFormatting/Example of hierBAPS input in XLS format.xls rename to inst/ext/ExamplesDataFormatting/Example of hierBAPS input in XLS format.xls diff --git a/data/ExamplesDataFormatting/Example of sample population index file to be used with BAPS formatted data.txt b/inst/ext/ExamplesDataFormatting/Example of sample population index file to be used with BAPS formatted data.txt similarity index 100% rename from data/ExamplesDataFormatting/Example of sample population index file to be used with BAPS formatted data.txt rename to inst/ext/ExamplesDataFormatting/Example of sample population index file to be used with BAPS formatted data.txt diff --git a/data/ExamplesDataFormatting/Example of sample population names file to be used with BAPS formatted data.txt b/inst/ext/ExamplesDataFormatting/Example of sample population names file to be used with BAPS formatted data.txt similarity index 100% rename from data/ExamplesDataFormatting/Example of sample population names file to be used with BAPS formatted data.txt rename to inst/ext/ExamplesDataFormatting/Example of sample population names file to be used with BAPS formatted data.txt diff --git a/data/ExamplesDataFormatting/Example pre-grouped sample data in GENEPOP format for Trained clustering.txt b/inst/ext/ExamplesDataFormatting/Example pre-grouped sample data in GENEPOP format for Trained clustering.txt similarity index 100% rename from data/ExamplesDataFormatting/Example pre-grouped sample data in GENEPOP format for Trained clustering.txt rename to inst/ext/ExamplesDataFormatting/Example pre-grouped sample data in GENEPOP format for Trained clustering.txt diff --git a/data/ExamplesDataFormatting/Example sample data in GENEPOP format for Trained clustering.txt b/inst/ext/ExamplesDataFormatting/Example sample data in GENEPOP format for Trained clustering.txt similarity index 100% rename from data/ExamplesDataFormatting/Example sample data in GENEPOP format for Trained clustering.txt rename to inst/ext/ExamplesDataFormatting/Example sample data in GENEPOP format for Trained clustering.txt diff --git a/data/ExamplesDataFormatting/Example test data in XLS format for Trained clustering.xls b/inst/ext/ExamplesDataFormatting/Example test data in XLS format for Trained clustering.xls similarity index 100% rename from data/ExamplesDataFormatting/Example test data in XLS format for Trained clustering.xls rename to inst/ext/ExamplesDataFormatting/Example test data in XLS format for Trained clustering.xls diff --git a/data/ExamplesDataFormatting/Example training data in XLS format for Trained clustering.xls b/inst/ext/ExamplesDataFormatting/Example training data in XLS format for Trained clustering.xls similarity index 100% rename from data/ExamplesDataFormatting/Example training data in XLS format for Trained clustering.xls rename to inst/ext/ExamplesDataFormatting/Example training data in XLS format for Trained clustering.xls diff --git a/data/ExamplesDataFormatting/Notes.md b/inst/ext/ExamplesDataFormatting/Notes.md similarity index 100% rename from data/ExamplesDataFormatting/Notes.md rename to inst/ext/ExamplesDataFormatting/Notes.md