small fixes

## zUMIs.0.0.4

- Added support for plate barcodes with an additional separate barcode fastq file (e.g. for Illumina i7 read)

- Parameters for zUMIs calls are now printed in a '.zUMIs_run.txt' file

## zUMIs.0.0.3

- Implemented up to date Rsubread version

- Introduction of Hamming distance filtering of UMI sequences

- Introduction of binning adjacent cell barcodes by Hamming distance

## zUMIs.0.0.2

- Added inDrops-V3 mode

      for(i in dups){

        tmpdists<-tmp[which(tmp$Var2==i),"value"]

        if(min(tmpdists)==max(tmpdists)){ #if the dups are all with same dist

          tmp <- tmp[-which(tmp$Var2==i),] #..remove them

          binnable <- tmp[-which(tmp$Var2==i),] #..remove them

        }else{

          tmp <- tmp[-which(tmp$Var2==i & tmp$value>min(tmpdists)),] #keep only the minimal distance

          if(nrow(tmp[which(tmp$Var2==i),])>1){ #if still more than one possibility

            tmp <- tmp[-which(tmp$Var2==i),] #...remove them

          binnable <- tmp[-which(tmp$Var2==i & tmp$value>min(tmpdists)),] #keep only the minimal distance

          if(nrow(binnable[which(binnable$Var2==i),])>1){ #if still more than one possibility

            binnable <- binnable[-which(binnable$Var2==i),] #...remove them

          }

        }

      }