Package: biogram 1.6.3

biogram: N-Gram Analysis of Biological Sequences

Tools for extraction and analysis of various n-grams (k-mers) derived from biological sequences (proteins or nucleic acids). Contains QuiPT (quick permutation test) for fast feature-filtering of the n-gram data.

Authors:Michal Burdukiewicz [cre, aut], Piotr Sobczyk [aut], Chris Lauber [aut], Dominik Rafacz [aut], Katarzyna Sidorczuk [ctb]

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biogram.pdf |biogram.html✨
biogram/json (API)

Peer review:

Bug tracker:https://github.com/michbur/biogram/issues

On CRAN:

biological-sequencesngram-analysis

49 exports 9 stars 2.24 score 13 dependencies 3 dependents 87 scripts 294 downloads

Last updated 18 days agofrom:c06cd55946. Checks:OK: 1 ERROR: 6. Indexed: yes.

Exports:add_1gramsbinarizecalc_criterioncalc_cscalc_edcalc_igcalc_klcalc_picalc_sicheck_criterioncluster_reg_expcode_ngramsconstruct_ngramscount_multigramscount_ngramscount_specifiedcount_totalcreate_encodingcreate_feature_targetcreate_ngramsdecode_ngramsdegeneratedegenerate_ngramsdistr_critencoding2dffast_crosstablefull2simplegap_ngramsgenerate_single_regiongenerate_single_unigramgenerate_unigramsget_ngrams_indis_ngraml2nlengths_ngramslist2matrixn2lngrams2dfposition_ngramsread_fastaread_txtregenerateseq2ngramssimple2fulltable_ngramstest_featuresvalidate_encodingwrite_encodingwrite_fasta

Dependencies:combinatentropygmplatticemathjaxrMatrixpartitionspbapplypolynomrbibutilsRdpacksetsslam