Resolve "Fix Pool and Pseudoreps"

Closes #20 (closed) Closes #19 (closed)

docs/xcor_header.txt

+See https://github.com/crazyhottommy/phantompeakqualtools for more details
+
+COL1: Filename: tagAlign/BAM filename
+COL2: numReads: effective sequencing depth i.e. total number of mapped reads in input file
+COL3: estFragLen: comma separated strand cross-correlation peak(s) in decreasing order of correlation.
+	  The top 3 local maxima locations that are within 90% of the maximum cross-correlation value are output.
+	  In almost all cases, the top (first) value in the list represents the predominant fragment length.
+	  If you want to keep only the top value simply run
+	  sed -r 's/,[^\t]+//g' <outFile> > <newOutFile>
+COL4: corr_estFragLen: comma separated strand cross-correlation value(s) in decreasing order (col2 follows the same order)
+COL5: phantomPeak: Read length/phantom peak strand shift
+COL6: corr_phantomPeak: Correlation value at phantom peak
+COL7: argmin_corr: strand shift at which cross-correlation is lowest
+COL8: min_corr: minimum value of cross-correlation
+COL9: Normalized strand cross-correlation coefficient (NSC) = COL4 / COL8
+COL10: Relative strand cross-correlation coefficient (RSC) = (COL4 - COL8) / (COL6 - COL8)
+COL11: QualityTag: Quality tag based on thresholded RSC (codes: -2:veryLow,-1:Low,0:Medium,1:High,2:veryHigh)