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Last seen 10.1 years ago
Hello,
I have an indexed bam files from 454 sequencing on short reference
sequences. I would like to create a consensus sequence in fasta format
from this bam file using R Bioconductor. Is there a way to do that
simply ?
Thanks in advance
Jacques
-- output of sessionInfo():
R version 2.15.1 (2012-06-22)
Platform: i386-pc-mingw32/i386 (32-bit)
locale:
[1] LC_COLLATE=French_France.1252 LC_CTYPE=French_France.1252
[3] LC_MONETARY=French_France.1252 LC_NUMERIC=C
[5] LC_TIME=French_France.1252
attached base packages:
[1] grDevices datasets splines graphics stats tcltk utils
[8] methods base
other attached packages:
[1] Rsamtools_1.10.2 Biostrings_2.26.3 GenomicRanges_1.10.7
[4] IRanges_1.16.6 BiocGenerics_0.4.0 TinnR_1.0-5
[7] R2HTML_2.2.1 Hmisc_3.10-1.1 survival_2.36-14
loaded via a namespace (and not attached):
[1] bitops_1.0-5 cluster_1.14.4 grid_2.15.1 lattice_0.20-15
[5] parallel_2.15.1 stats4_2.15.1 tools_2.15.1 zlibbioc_1.4.0
--
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