Add locfit package to required list

Update RNA-seq practical

Update index

Author: markdunning

Practicals/3. RNAseq-practical.pdf

@@ -84,7 +84,7 @@ <h3>
         biocLite(c("Biostrings", "ShortRead", "DESeq", "edgeR","biomaRt", "BSgenome",
         "BSgenome.Dmelanogaster.UCSC.dm6", "org.Dm.eg.db",
         "TxDb.Dmelanogaster.UCSC.dm3.ensGene", "pasillaBamSubset", "pasilla",
-        "rtracklayer", "ggbio", "vsn","gplots","RColorBrewer","chipseq","htSeqTools","limma","NBPSeq","tweeDEseqCountData","org.Hs.eg.db","Rcade", "exomeCopy","CNAnorm", "ChIPQC","TxDb.Hsapiens.UCSC.hg19.knownGene","BSgenome.Hsapiens.UCSC.hg19", "ChIPpeakAnno","statmod"))
+        "rtracklayer", "ggbio", "vsn","gplots","RColorBrewer","chipseq","htSeqTools","limma","NBPSeq","tweeDEseqCountData","org.Hs.eg.db","Rcade", "exomeCopy","CNAnorm", "ChIPQC","TxDb.Hsapiens.UCSC.hg19.knownGene","BSgenome.Hsapiens.UCSC.hg19", "ChIPpeakAnno","statmod","locfit"))
         </code></pre>
 
         </p>

Practicals/3.RNAseq-practical.pdf

@@ -4,7 +4,7 @@ options(repos = c("CRAN" = "http://cran.ma.imperial.ac.uk"))
 biocLite(c("Biostrings", "ShortRead", "DESeq", "edgeR","biomaRt", "BSgenome",
         "BSgenome.Dmelanogaster.UCSC.dm6", "org.Dm.eg.db",
         "TxDb.Dmelanogaster.UCSC.dm3.ensGene", "pasillaBamSubset", "pasilla",
-        "rtracklayer", "ggbio", "vsn","gplots","RColorBrewer","chipseq","htSeqTools","limma","NBPSeq","tweeDEseqCountData","org.Hs.eg.db","Rcade", "ChIPQC","TxDb.Hsapiens.UCSC.hg19.knownGene","BSgenome.Hsapiens.UCSC.hg19","ChIPpeakAnno","statmod"))
+        "rtracklayer", "ggbio", "vsn","gplots","RColorBrewer","chipseq","htSeqTools","limma","NBPSeq","tweeDEseqCountData","org.Hs.eg.db","Rcade", "ChIPQC","TxDb.Hsapiens.UCSC.hg19.knownGene","BSgenome.Hsapiens.UCSC.hg19","ChIPpeakAnno","statmod","locfit"))
 
 ##Also need to install spp_1.11.tar.gz which requires the 'boost' library.