.gitignore
          
        
          
            
            DESCRIPTION
          
        
          
            
            LICENSE
          
        
          
            
            NAMESPACE
          
        
          
            
            NEWS.md
          
        
          
            
            R/angenieux.R
          
        
          
            
            R/angenieux_theme.R
          
        
          
            
            R/bamfile.R
          
        
          
            
            R/fast5.R
          
        
          
            
            R/fasta.R
          
        
          
            
            R/fastq.R
          
        
          
            
            R/file_check.R
          
        
          
            
            R/floundeR.R
          
        
          
            
            R/flowcell.R
          
        
          
            
            R/genbank_genome.R
          
        
          
            
            R/infographic.R
          
        
          
            
            R/multiplex_set.R
          
        
          
            
            R/ncbi_blast.R
          
        
          
            
            R/sequencing_set.R
          
        
          
            
            R/sequencing_summary.R
          
        
          
            
            R/temporal_set.R
          
        
          
            
            R/zzz.R
          
        
          
            
            README.md
          
        
          
            
            _pkgdown.yml
          
        
          
            
            docs/404.html
          
        
          
            
            docs/LICENSE-text.html
          
        
          
            
            docs/articles/01_fasta_files.html
          
        
          
            
            docs/articles/01_fasta_files_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/01_fasta_files_files/header-attrs-2.11/header-attrs.js
          
        
          
            
            docs/articles/02_fastq_files.html
          
        
          
            
            docs/articles/02_fastq_files_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/02_fastq_files_files/header-attrs-2.11/header-attrs.js
          
        
          
            
            docs/articles/03_fast5_files.html
          
        
          
            
            docs/articles/03_fast5_files_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/03_fast5_files_files/header-attrs-2.11/header-attrs.js
          
        
          
            
            docs/articles/03_fast5_files_files/kePrint-0.0.1/kePrint.js
          
        
          
            
            docs/articles/03_fast5_files_files/lightable-0.0.1/lightable.css
          
        
          
            
            docs/articles/04_seqsum_files.html
          
        
          
            
            docs/articles/04_seqsum_files_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/04_seqsum_files_files/header-attrs-2.11/header-attrs.js
          
        
          
            
            docs/articles/04_seqsum_files_files/kePrint-0.0.1/kePrint.js
          
        
          
            
            docs/articles/04_seqsum_files_files/lightable-0.0.1/lightable.css
          
        
          
            
            docs/articles/05_blast_files.html
          
        
          
            
            docs/articles/05_blast_files_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/05_blast_files_files/header-attrs-2.11/header-attrs.js
          
        
          
            
            docs/articles/blast_files.html
          
        
          
            
            docs/articles/blast_files_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/blast_parsing.html
          
        
          
            
            docs/articles/blast_parsing_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/fast5_files.html
          
        
          
            
            docs/articles/fast5_files_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/fast5_files_files/kePrint-0.0.1/kePrint.js
          
        
          
            
            docs/articles/fast5_files_files/lightable-0.0.1/lightable.css
          
        
          
            
            docs/articles/fast5_review.html
          
        
          
            
            docs/articles/fast5_review_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/fast5_review_files/kePrint-0.0.1/kePrint.js
          
        
          
            
            docs/articles/fast5_review_files/lightable-0.0.1/lightable.css
          
        
          
            
            docs/articles/fasta_files.html
          
        
          
            
            docs/articles/fasta_files_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/fastq_files.html
          
        
          
            
            docs/articles/fastq_files_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/fastq_processing.html
          
        
          
            
            docs/articles/fastq_processing_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
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            docs/articles/genbank_parsing.html
          
        
          
            
            docs/articles/genbank_parsing_files/header-attrs-2.11/header-attrs.js
          
        
          
            
            docs/articles/index.html
          
        
          
            
            docs/articles/seqsum_files.html
          
        
          
            
            docs/articles/seqsum_files_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/seqsum_files_files/kePrint-0.0.1/kePrint.js
          
        
          
            
            docs/articles/seqsum_files_files/lightable-0.0.1/lightable.css
          
        
          
            
            docs/articles/sequencing_summary_review.html
          
        
          
            
            docs/articles/sequencing_summary_review_files/accessible-code-block-0.0.1/empty-anchor.js
          
        
          
            
            docs/articles/sequencing_summary_review_files/kePrint-0.0.1/kePrint.js
          
        
          
            
            docs/articles/sequencing_summary_review_files/lightable-0.0.1/lightable.css
          
        
          
            
            docs/authors.html
          
        
          
            
            docs/bootstrap-toc.css
          
        
          
            
            docs/bootstrap-toc.js
          
        
          
            
            docs/docsearch.css
          
        
          
            
            docs/docsearch.js
          
        
          
            
            docs/index.html
          
        
          
            
            docs/link.svg
          
        
          
            
            docs/news/index.html
          
        
          
            
            docs/pkgdown.css
          
        
          
            
            docs/pkgdown.js
          
        
          
            
            docs/pkgdown.yml
          
        
          
            
            docs/reference/Angenieux.html
          
        
          
            
            docs/reference/AngenieuxDecoration.html
          
        
          
            
            docs/reference/Blast.html
          
        
          
            
            docs/reference/Fast5.html
          
        
          
            
            docs/reference/Fasta.html
          
        
          
            
            docs/reference/Fastq.html
          
        
          
            
            docs/reference/FloundeR.html
          
        
          
            
            docs/reference/Flowcell.html
          
        
          
            
            docs/reference/Infographic.html
          
        
          
            
            docs/reference/InfographicItem.html
          
        
          
            
            docs/reference/MultiplexSet.html
          
        
          
            
            docs/reference/Rplot001.png
          
        
          
            
            docs/reference/SequencingSet.html
          
        
          
            
            docs/reference/SequencingSummary.html
          
        
          
            
            docs/reference/TemporalSet.html
          
        
          
            
            docs/reference/fishy_fastq.html
          
        
          
            
            docs/reference/flnDr.html
          
        
          
            
            docs/reference/index.html
          
        
          
            
            docs/reference/phredmean.html
          
        
          
            
            docs/reference/qualToMeanQ.html
          
        
          
            
            docs/reference/sequence_quality.html
          
        
          
            
            docs/reference/to_flowcell.html
          
        
          
            
            docs/reference/to_sequencing_set.html
          
        
          
            
            inst/extdata/TB_H37Rv.gb.gz
          
        
          
            
            inst/extdata/barcoding_summary.txt.bz2
          
        
          
            
            inst/extdata/cluster_cons.fasta.bgz
          
        
          
            
            inst/extdata/cluster_cons.fasta.bgz.fai
          
        
          
            
            inst/extdata/cluster_cons.fasta.bgz.gzi
          
        
          
            
            inst/extdata/drosophila_fl_sample.fasta.gz
          
        
          
            
            inst/extdata/example.fastq.gz
          
        
          
            
            inst/extdata/multi.fast5
          
        
          
            
            inst/extdata/not_fast5.fast5
          
        
          
            
            inst/extdata/prom.fast5
          
        
          
            
            inst/extdata/sequencing_summary.txt.bz2
          
        
          
            
            inst/extdata/single.fast5
          
        
          
            
            man/Angenieux.Rd
          
        
          
            
            man/AngenieuxDecoration.Rd
          
        
          
            
            man/Blast.Rd
          
        
          
            
            man/Fast5.Rd
          
        
          
            
            man/Fasta.Rd
          
        
          
            
            man/Fastq.Rd
          
        
          
            
            man/FloundeR.Rd
          
        
          
            
            man/Flowcell.Rd
          
        
          
            
            man/GenbankGenome.Rd
          
        
          
            
            man/Infographic.Rd
          
        
          
            
            man/InfographicItem.Rd
          
        
          
            
            man/MultiplexSet.Rd
          
        
          
            
            man/SequencingSet.Rd
          
        
          
            
            man/SequencingSummary.Rd
          
        
          
            
            man/TemporalSet.Rd
          
        
          
            
            man/flnDr.Rd
          
        
          
            
            man/phredmean.Rd
          
        
          
            
            man/qualToMeanQ.Rd
          
        
          
            
            man/to_flowcell.Rd
          
        
          
            
            man/to_sequencing_set.Rd
          
        
          
            
            tests/testthat.R
          
        
          
            
            tests/testthat/test-angenieux.R
          
        
          
            
            tests/testthat/test-fast5.R
          
        
          
            
            tests/testthat/test-fasta.R
          
        
          
            
            tests/testthat/test-fastq.R
          
        
          
            
            tests/testthat/test-flowcell.R
          
        
          
            
            tests/testthat/test-genbank_genome.R
          
        
          
            
            tests/testthat/test-infographic.R
          
        
          
            
            tests/testthat/test-multiplex_set.R
          
        
          
            
            tests/testthat/test-ncbi_blast.R
          
        
          
            
            tests/testthat/test-sequencing_set.R
          
        
          
            
            tests/testthat/test-sequencing_summary.R
          
        
          
            
            tests/testthat/test-temporal_set.R
          
        
          
            
            tests/testthat/testthat-problems.rds
          
        
          
            
            vignettes/.gitignore
          
        
          
            
            vignettes/01_fasta_files.Rmd
          
        
          
            
            vignettes/02_fastq_files.Rmd
          
        
          
            
            vignettes/03_fast5_files.Rmd
          
        
          
            
            vignettes/04_seqsum_files.Rmd
          
        
          
            
            vignettes/05_blast_files.Rmd
          
        
          
            
            vignettes/figure_1.png
          
        
          
            
            vignettes/figure_2.png
          
        
          
            
            vignettes/figure_3.png
          
        
          
            
            vignettes/figure_4.png
          
        
          
            
            vignettes/figure_5.png
          
        
          
            
            vignettes/figure_6.png
          
        
          
            
            vignettes/figure_7.png
          
        
          
            
            vignettes/figure_8.png
          
        
          
            
            vignettes/figure_9.png
          
        
          
            
            vignettes/genbank_parsing.Rmd