To Get Some Protein Statistics
Expected numeric results for Ka and Ks computation
Forensic Genetic Profile Allelic Ladder Raw Data
Vectors of coefficients to compute linear forms.
Calculates the fractional G+C content of nucleic acid sequences.
Forensic Genetic Profile Raw Data
utility data for seqinr
Sequence coming from a remote ACNUC data base
AA sequence in Fasta Format
Class for DNA sequence in Fasta Format
Class for sub-sequences
Converts amino-acid three-letter code into the one-letter one
Converts amino-acid one-letter code into the three-letter one
Aerobic cost of amino-acids in Escherichia coli and G+C classes
List of 544 physicochemical and biological properties for the 20 amino-acids
open and close a remote access to an ACNUC database
To Convert a forensic microsatellite allele name into its length in base pairs
To get the count of existing lists and all their ranks on server
Expansion of IUPAC nucleotide symbols
Constructor for class alignment
as.matrix.alignment
Returns a socket to the last opened database
Estimation of baseline value
Computing an IUPAC nucleotide symbol
conversion of a vector of chars into a string
Codon Adaptation Index
Codon Adaptation Index (CAI) w tables
Base composition in ssDNA for 7 bacterial DNA
To select a database structured under ACNUC and located on the web
Draws a circle
To close a remote ACNUC database
Example of results obtained after a call to read.alignment
To use a standard color with an alpha transparency chanel
complements a nucleic acid sequence
To Compute the Theoretical Isoelectric Point
Consensus and profiles for sequence alignments
Composition of dimer/trimer/etc oligomers
The number of free lists available and annotation lines in an ACNUC server
Number of subsequences in an ACNUC list
To create on server an ACNUC list from data lines sent by client
Distribution of bacterial genome size from GOLD
Mean zscore on 242 complete bacterial chromosomes
Pairwise Distances from Aligned Protein or DNA/RNA Sequences
Dot Plot Comparison of two sequences
Cleveland plot for codon usage tables
Graphical representation for nucleotide skews in prokaryotic chromosomes.
Graphical representation for rearranged nucleotide skews in prokaryotic chromosomes.
Graphical representation of a recstat analysis.
999 coding sequences from E. coli
Extraction of breakpoint positions on the rearranged nucleotide skews.
To extract the sequences information of a sequence or a list of sequence in different formats
Example of results obtained after a call to read.alignment
Fast Allele in Common Count
Conversion of GenBank file into fasta file
Conversion of a GenBank format file into a glimmer-like one
Conversion of a GenBank format file into a glimmer-like one. Eukaryotic version.
GC content and aerobiosis in bacteria
GC content and temperature in bacteria
Get the exponential growth of nucleic acid database content
Generic Function to get sequence annotations
Generic function to extract sequence fragments
Generic function to get keywords associated to sequences
Generic function to get the length of sequences
Generic function to get the location of subsequences on the parent sequence
Generic function to get the names of sequences
Generic function to get sequence data
Generic function to translate coding sequences into proteins
To get available subsequence types in an opened ACNUC database
To get the rank of a list from its name
Asks for information about an ACNUC list of specified rank
Extract sequence identified by name or by number from an ACNUC server
Get help from an ACNUC server
GS500LIZ size standards
Identifiler allele names
Get the ACNUC number of a sequence from its name or accession number
Expected numeric results for Ka and Ks in extreme cases
Ka and Ks, also known as dn and ds, computation
Description of databases known by an ACNUC server
To see what's inside the package seqinr
Fragment of the E. coli chromosome
Example of results obtained after a call to read.alignment
Modification of an ACNUC list
Rename an R object
Example of results obtained after a call to read.alignment
function to convert the numeric encoding of a DNA sequence into a vector of characters
Prediction of origin and terminus of replication in bacteria.
pK values for the side chain of charged amino acids from various sources
Utility function to parse answers from an ACNUC server
Extraction of Peak locations, Heights and Surfaces from ABIF data
Sequence permutation according to several different models
Example of results obtained after a call to read.alignment
To Plot Subsequences on the Parent Sequence
Representation of Amplicon Size Ranges of a STR kit.
Electrophoregram plot for ABIF data
Simple plot of an allelic ladder from ABIF data
Protein Molecular Weight
Select annotation lines in an ACNUC database
Text representation of a sequence from an ACNUC server
Print method for objects from class SeqAcnucWeb
Print method for objects from class qaw
Zscore on three strains of Prochlorococcus marinus
To get a list of sequence names from an ACNUC data base located on the web
Read ABIF formatted files
Read aligned sequence files in mase, clustal, phylip, fasta or msf format
read FASTA formatted files
Import GenMapper Bins configuration file
Import GenMapper Panels configuration file
Low level function to get the record count of the specified ACNUC index file
Low level function to read ACNUC SMJYT index files
Detection of replication-associated effects on base composition asymmetry in prokaryotic chromosomes.
Prediction of Coding DNA Sequences.
Total number of residues in an ACNUC list
Three aligned nucleic acid sequences
Reverse alignment - from protein sequence alignment to nucleic sequence alignment
Ergheaf gur EBG-13 pvcurevat bs n fgevat
conversion of a string into a vector of chars
simple numerical encoding of a DNA sequence.
Save sequence names or accession numbers into a file
Biological Sequences Retrieval and Analysis
Sets the name of an ACNUC list identified by its rank
split a sequence into sub-sequences
Utility function to escape LaTeX special characters present in a string
Stutter ratio estimation
Exchange two R objects
Synonymous codons
Random synonymous coding sequence generation
to plot genetic code as in textbooks
Tests if regions located between Stop codons contain putative CDSs.
Tests if regions located between Stop codons contain putative CDSs.
A toy example of amino-acid counts in three proteins
A toy example of codon counts in three coding sequences
Translate nucleic acid sequences into proteins
Trim leading and/or trailing spaces in strings
Codon usage indices
Weight of each synonymous codon
Light absorption by the water column
Scans databases for a given sequence accession number
To get all words from an alphabet.
Positions of possibly degenerated motifs within sequences
Write sequence(s) into a file in fasta format
Statistical over- and under- representation of dinucleotides in a sequence