B E A U T I F U L

README.md

@@ -106,6 +106,7 @@ The -f argument is used to pass in a full path to what we deem a 'fragments file
    separated by space or tab. All possible fragments need to be listed
    in this file.  One example file would look like below (excluding
    the header which is not a part of input):
+
 | chr |  extraField | fragmentMid|marginalizedContactCount|mappable? (0/1)|
 |---|---|---|---|---|
 | 1 | 0 | 15000|234|1
@@ -248,6 +249,7 @@ following names:
 
 The first file will report the results of equal occupancy binning in
 five fields. An example of which is shown below:
+
 | avgGenomicDist| contactProbability | standardError|noOfLocusPairs|totalOfContactCounts|
 |---|---|---|---|---|
 | 20077 | 2.38e-05 |2.11e-06|210|19574
@@ -258,6 +260,7 @@ The second file will have the exact same lines as in the input file
 that contains the list of mid-range contacts. This input file had 5
 fields as described above. The output from each step will append two
 more columns to these fields, namely p-value and q-value.
+
 | chr1 |  fragmentMid1 | chr2|fragmentMid2|contactCount|p-value|q-value|
 |---|---|---|---|---|---|---|
 | 1 | 15000 | 1|35000|23|1.000000e+00   |1.000000e+00
@@ -296,4 +299,3 @@ The above copyright notice and this permission notice shall be included in all c
 
 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
 
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