genomeIntervals-package   package:genomeIntervals   R Documentation

_O_p_e_r_a_t_i_o_n_s _o_n _g_e_n_o_m_i_c _i_n_t_e_r_v_a_l_s

_D_e_s_c_r_i_p_t_i_o_n:

     Tools for operation on genomic intervals.

_D_e_t_a_i_l_s:


       Package:    genomeIntervals
       Version:    0.9.6
       Date:       2009-01-15
       Type:       Package
       Depends:    R (>= 2.8.0), intervals (>= 0.10.3), Biobase, methods
       Suggests:   
       License:    Artistic 2.0
       BiocViews:  DataImport, Infrastructure, Genetics
       LazyLoad:   yes

     Index:

     '_G_e_n_o_m_e__i_n_t_e_r_v_a_l_s' Class "Genome_intervals"

     '_G_e_n_o_m_e__i_n_t_e_r_v_a_l_s__s_t_r_a_n_d_e_d' Class "Genome_intervals_stranded"

     '_d_i_s_t_a_n_c_e__t_o__n_e_a_r_e_s_t' Distance in bases to the closest interval(s)

     '_g_e_n__i_n_t_s' Genome Intervals examples

     '_g_e_t_G_f_f_A_t_t_r_i_b_u_t_e' Pull one or more key/value pairs from
          gffAttributes strings

     '_i_n_t_e_r_v_a_l__o_v_e_r_l_a_p' Assess overlap from one set of genomic
          intervals to another

     '_i_n_t_e_r_v_a_l__c_o_m_p_l_e_m_e_n_t' Compute the complement of a set of genomic
          intervals

     '_i_n_t_e_r_v_a_l__i_n_t_e_r_s_e_c_t_i_o_n' Compute the intersection of one or more
          sets of genomic intervals

     '_i_n_t_e_r_v_a_l__u_n_i_o_n' Compute the union of genomic intervals in one or
          more genomic interval matrices

     '_p_a_r_s_e_G_f_f_A_t_t_r_i_b_u_t_e_s' Parse out the gffAttributes column of a
          'Genome_intervals' object

     '_r_e_a_d_G_f_f_3' Make a 'Genome_intervals_stranded' object from a GFF
          file

_A_u_t_h_o_r(_s):

     Julien Gagneur <gagneur@embl.de>, Richard Bourgon.

     Maintainer: Julien Gagneur <gagneur@embl.de>

_S_e_e _A_l_s_o:

     'intervals'

