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1. CRISPRviewR CRISPRviewR Public

   an R package for repairing, comparing, and visualizing CRISPRs across environmental datasets

   R 1

2. bracken_plot bracken_plot Public

   A Shiny app for taxonomic abundance visualization

   R 7 1

3. nodeSeqs nodeSeqs Public

   Shell script for extracting sequences from high-degree nodes in metagenomic assembly graphs

   Shell

4. findMotifs findMotifs Public

   R script for finding and scoring motifs in small genomes using position-frequency tables

   R 1

5. Given a MSA and a list of motifs, ge... Given a MSA and a list of motifs, get position in each sequence where motifs are found.

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   msa_motifs <- function(msa, motifs) {

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     require(tibble)

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     require(Biostrings)

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     require(dplyr)

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     # read in fasta as Biostrings object

6. given a nucleotide sequence, generat... given a nucleotide sequence, generate an index-color string recognized by forna

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   # requires the native pipe from R >= 4.1

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   ## maps each base to a particular color

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   ## colors can be named or hex values

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   ## outputs a format recognized by the forna webapp's custom color editor

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   ## http://rna.tbi.univie.ac.at/forna/forna.html