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