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Copy file name to clipboardExpand all lines: docs/output.md
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@@ -763,14 +763,14 @@ When using pileupCaller for genotyping, single-stranded and double-stranded libr
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-`consensus_sequence/multivcfanalyzer/`
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-`data/`
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-`*fullAlignment.fasta.gz`: FASTA file of all positions contained in the VCF files i.e. including ref calls
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-`*snpAlignment.fasta.gz`: FASTA file of only SNP positions including only the calls of the samples.
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-`*snpAlignment.fasta.gz`: FASTA file of only SNP positions including only the calls of the samples.
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-`*snpAlignmentIncludingRefGenome.fasta.gz`: FASTA file of just SNP positions including reference genome calls.
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-`stats/`
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-`*info.txt`: File with information about the run
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-`*snpStatistics.tsv`: File containing basic statistics about the SNP calls of each sample.
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-`*snpTableForSnpEff.tsv`: Input file for SnpEff.
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-`*snpTable.tsv`: SNP table of combined positions taken from each VCF file, in TSV format.
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-`*snpTableWithUncertaintyCalls.tsv`: SNP table of combined positions taken from each VCF file, in TSV format, but with lower case characters indicating uncertain calls
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-`*snpTableWithUncertaintyCalls.tsv`: SNP table of combined positions taken from each VCF file, in TSV format, but with lower case characters indicating uncertain calls
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-`*structureGenotypes_noMissingData-Columns.tsv`: Alternate input file for STRUCTURE.
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-`*structureGenotypes.tsv`: Input file for STRUCTURE.
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