For RNA assembly I am following the following link https://scholarworks.iu.edu/dspace/bitstream/handle/2022/22513/RNASeqClass2018.pdf?sequence=1&isAllowed=y (on https://galaxy.ncgas-trinity.indiana.edu).
Followed all steps as mentioned in the above link, for abundance estimation to matrix tool I have used two samples and the output files are TMM EXPR and counts matrix. Further used edgeR tool where I have to give inputs of counts matrix and trinity assembled transcripts. Here I have doubt which assembled transcript I need to give as input. my sample one’s or two’s because the resulted file from edger is combination of two samples.
I have run edgeR once with sample one’s and second time with other sample’s assembled transcript. In both cases I have got output without any error. Followed by I have run differential expression where I have got error like below.
I have rerun the jobs and checked all other outputs(have multiple pairs per sample so checked with all the outputs) but the result is same error. what does this error mean and how to rectify it?
Can anyone suggest the way out please?