[R] How to remove some rows from a data.frame

[Henrique Dallazuanna]

Try this:

f <- function(x)
{
cbind.data.frame(chr=unique(x$chr),
                 Start=min(x$pos),
                 End=max(x$pos),
                 Rows=nrow(x),
                 Pattern=paste("(", x$s1, x$s2, ")")
                 )
}

do.call("rbind", lapply(lapply(split(df, paste(df$s1, df$s2)), f), unique))


On 24/12/2007, affy snp <affysnp at gmail.com> wrote:
> Thanks Moshe! I apologize for not being so clear about the
> second part. Again, below is how the data looks like. The
> pattern for columns s1 and s2 will be:
>
> (-1 -1)  (-1 0)  (-1 1)  (0 -1)   (0 0)   (0 1)  (1 -1)   (1 0)   (1 1)
>  104    131     57      631     305    668    33       15     107
>
> There are 9 patterns, in other words, 9 combinations of -1,1, 0
> given in the parenthesis. The occurring numbers are underneath.
> What I wish to have is that: scan the data from the begin,
> if any consecutive rows are of the same pattern (one of the 9
> combinations in the above), we will 'memorize' the following information:
>
> the number in 'chr' column, the number in 'pos' column for the first
> row in the consecutive rows, the number in 'pos' column for the
> last row in the consecutive rows, how many rows of the consecutive
> rows, the corresponding pattern for them.
>
> I forgot to reinforce one requirement before for definition of
> the consecutive rows, which is that they are in the consecutive
> orders and are of the same number of 'chr'.
>
> Just to illustrate this, an example could be that, based on the data:
>
> BAC                 chr    pos          s1   s2
> RP11-80G24    1    77465510    0    0
> RP11-198H14    1    78696291    -1    0
> RP11-267M21    1    79681704    -1    0
> RP11-89A19      1    80950808    -1    0
> RP11-6B16        1    82255496    -1    0
> RP11-210E16    2    228801510    -1   0
>
> even though row 2---6 are of the same pattern, which is -1 0
> and are in the consecutive order, but row 6 is of different number
> of 'chr' than other rows. Therefore, we will not count row 6 and
> end up with:
> chr    Start           End        #of_rows          pattern
> 1    78696291    82255496   4                    (-1 0)
>
> Hope this is clear. Thank you once again and Merry X'mas!
>
> Best,
>     Allen
>
>
>
>
>
> > BAC                 chr    pos          s1   s2
> > RP11-80G24    1    77465510    -1    0
> > RP11-198H14    1    78696291    -1    0
> > RP11-267M21    1    79681704    -1    0
> > RP11-89A19      1    80950808    -1    0
> > RP11-6B16        1    82255496    -1    0
> > RP11-210E16    1    228801510    0    -1
> > RP11-155C15    1    230957584    0    -1
> > RP11-210F8      1    237932418    0    -1
> > RP11-263L17     2    65724492    0    1
> > RP11-340F16     2    65879898    0    1
> > RP11-68A1        2    67718674    0    0
> > RP11-474G23    2    68318411    0    0
> > RP11-218N6      2    68454651    0    0
> > CTD-2003M22    2    68567494    0    0
> > .....
> >
>
> On Dec 24, 2007 3:54 AM, Moshe Olshansky <m_olshansky at yahoo.com> wrote:
>
> > To answer your firs question try
> >
> > M[-which( M$s1 == 0 & M$s2 == 0),]
> >
> > For the second question, you must start with the more
> > precise definition of the grouping criterion.
> >
> > --- affy snp <affysnp at gmail.com> wrote:
> >
> > > Hello list,
> > >
> > > I have a data frame M like:
> > >
> > > BAC                 chr    pos          s1   s2
> > > RP11-80G24    1    77465510    -1    0
> > > RP11-198H14    1    78696291    -1    0
> > > RP11-267M21    1    79681704    -1    0
> > > RP11-89A19      1    80950808    -1    0
> > > RP11-6B16        1    82255496    -1    0
> > > RP11-210E16    1    228801510    0    -1
> > > RP11-155C15    1    230957584    0    -1
> > > RP11-210F8      1    237932418    0    -1
> > > RP11-263L17     2    65724492    0    1
> > > RP11-340F16     2    65879898    0    1
> > > RP11-68A1        2    67718674    0    0
> > > RP11-474G23    2    68318411    0    0
> > > RP11-218N6      2    68454651    0    0
> > > CTD-2003M22    2    68567494    0    0
> > > .....
> > >
> > > how to remove those rows which have 0 for both of
> > > columns s1,s2?
> > > sth like M[!M$21=0&!M$s2=0]?
> > >
> > > Moreover, I want to get a list which could find a
> > > subset of rows which have
> > > the same pattern of data. For example, the first 8
> > > rows in M can be
> > > clustered
> > > into 2 groups (represented below in 2 rows) and
> > > shown as:
> > >
> > > chr             Start       End             # of
> > > rows     Pattern
> > > 1             77465510   82255496       5
> > >   (-1 0)
> > > 1            228801510  237932418     3
> > > (0 -1)
> > >
> > > Can anybody help me out of this? Thank you very much
> > > and happy holiday!
> > >
> > > Best,
> > >     Allen
> > >
> > >       [[alternative HTML version deleted]]
> > >
> > > ______________________________________________
> > > R-help at r-project.org mailing list
> > > https://stat.ethz.ch/mailman/listinfo/r-help
> > > PLEASE do read the posting guide
> > > http://www.R-project.org/posting-guide.html
> > > and provide commented, minimal, self-contained,
> > > reproducible code.
> > >
> >
> >
>
>        [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>


-- 
Henrique Dallazuanna
Curitiba-Paraná-Brasil
25° 25' 40" S 49° 16' 22" O