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2017xmq
19 分钟前
the function DESeqDataSetFromMatrix can be used if you already have a matrix of read counts prepared from another source； If you have transcript quantification files, as produced by Salmon, Sailfish, or kallisto, you would use DESeqDataSetFromTximport.
but i always see DESeqDataSetFromMatrix is the most used in tutorial, what is the detailed difference? thanks in advance
As far as I understood, DESeqDataSetFromTximport has the same purpose that DESeqDataSetFromMatrix but it can directly accept the output of a psedoaligner such as Salmon, producing directly the count matrix.
With DESeqDataSetFromMatrix, you need to have a count matrix already prepared with genes as rows ans samples as columns.
Hope this help