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hyginn 2021-09-15 20:54:29 -04:00
parent 6714171102
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RPR-FASTA.R
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@ -4,12 +4,13 @@
# Purpose: A Bioinformatics Course: # Purpose: A Bioinformatics Course:
# R code accompanying the RPR-FASTA unit. # R code accompanying the RPR-FASTA unit.
# #
# Version: 1.1.1 # Version: 1.1.2
# #
# Date: 2017-10 - 2020-09 # Date: 2017-10 - 2021-09
# Author: Boris Steipe (boris.steipe@utoronto.ca) # Author: Boris Steipe (boris.steipe@utoronto.ca)
# #
# Versions: # Versions:
# 1.1.2 style update
# 1.1.1 bugfix - wrong function name # 1.1.1 bugfix - wrong function name
# 1.1 2020 Maintenance. Rewrite validation logic. Add data # 1.1 2020 Maintenance. Rewrite validation logic. Add data
# to utilities. Define AACOLS # to utilities. Define AACOLS
@ -30,7 +31,7 @@
#TOC> ========================================================================== #TOC> ==========================================================================
#TOC> #TOC>
#TOC> Section Title Line #TOC> Section Title Line
#TOC> ----------------------------------------------------- #TOC> -----------------------------------------------------
#TOC> 1 Reading and validating FASTA 45 #TOC> 1 Reading and validating FASTA 45
@ -38,7 +39,7 @@
#TOC> 2 Parsing FASTA 227 #TOC> 2 Parsing FASTA 227
#TOC> 3 Interpreting FASTA 247 #TOC> 3 Interpreting FASTA 247
#TOC> 4 Writing FASTA 274 #TOC> 4 Writing FASTA 274
#TOC> #TOC>
#TOC> ========================================================================== #TOC> ==========================================================================
@ -56,7 +57,8 @@ faMBP1 <- readLines("./data/S288C_YDL056W_MBP1_coding.fsa")
# The warning is generated because the programmer at the NCBI who implemented # The warning is generated because the programmer at the NCBI who implemented
# the code to write this FASTA file neglected to place a line-break character # the code to write this FASTA file neglected to place a line-break character
# after the last sequence character. While this is not technically incorrect, # after the last sequence character. While this is not technically incorrect,
# it is poor practice. # it is poor practice: the resulting file can't be distinguished from one that
# has been truncated in transmission.
head(faMBP1) head(faMBP1)