Displaying 4 results from an estimated 4 matches for "atcg".
Did you mean:
acg
2010 Dec 21
3
Performing basic Multiple Sequence Alignment in R?
...CTAACT--CGCTGCG CGCAATACTAACCACTAACTCGCTGCG
5 CGCACGGGTAAGAACGTGA-TTACGCTCAG CGCACGGGTAAGAACGTGATTACGCTCAG
6 CGCTATACTAACAA-GTG-CTTAGGC-CTG CGCTATACTAACAAGTGCTTAGGCCTG
7 CCCA-C-CTAA-ACGGTGACTTACGCTCCG CCCACCTAAACGGTGACTTACGCTCCG
Here is an example code to reproduce the above example:
ATCG <- c("A","T","C","G")
set.seed(40)
original.seq <- sample(ATCG, 30, T)
seqS <- matrix(original.seq,200,30, T)
change.letters <- function(x, number.of.changes = 15,
letters.to.change.with = ATCG)
{
number.of.changes <- sample(seq_len(num...
2010 Nov 17
2
Bug in agrep computing edit distance?
I posted this yesterday to r-help and Ben Bolker suggested reposting it
here...
Dickison, Daniel <ddickison <at> carnegielearning.com> writes:
>
> The documentation for agrep says it uses the Levenshtein edit distance,
> but it seems to get this wrong in certain cases when there is a
> combination of deletions and substitutions. For example:
>
> >
2003 Oct 30
0
Release of Bioconductor 1.3
...port for design and contrast matrices, new
fitted model object class, within-gene multiple testing, Venn
diagrams and generally a move to a simpler command style at the
user level.
--- matchprobes:
A new package providing tools for working with probe sequence
information: calculate ATCG content, reverse, complement, mismatch
sequences; fast exact sequence matching; combine AffyBatches of
different chip types; create probe data packages.
--- Measurement.cor:
A package to fit a two-level measurement error model for estimation
of correlation coefficient between two ra...
2003 Oct 30
0
Release of Bioconductor 1.3
...port for design and contrast matrices, new
fitted model object class, within-gene multiple testing, Venn
diagrams and generally a move to a simpler command style at the
user level.
--- matchprobes:
A new package providing tools for working with probe sequence
information: calculate ATCG content, reverse, complement, mismatch
sequences; fast exact sequence matching; combine AffyBatches of
different chip types; create probe data packages.
--- Measurement.cor:
A package to fit a two-level measurement error model for estimation
of correlation coefficient between two ra...