Update HELP.md

loosolab · Jul 7, 2015 · e43d146 · e43d146
1 parent 45d32b3
commit e43d146
Showing 1 changed file with 12 additions and 7 deletions.
diff --git a/HELP.md b/HELP.md
@@ -88,6 +88,7 @@ A2A6A1 |
 O88898,P54763,Q3UHC0 |
 G5E870 |
 Q6A037 |
+  |
 
 Example "Allowed":
 
@@ -97,6 +98,7 @@ comp1000309_c0_seq1|slc15a3|Q8IY34,O75618                            |
 comp1000318_c0_seq1|       |                                         |
 comp1000627_c0_seq1|slc6a15|sp|Q9XS59|S6A15_BOVIN                    |
 comp1000899_c0_seq1|       |gb|CX212397.1,dbj|DB530926.2,gi|154363325|
+  |
 
 
 #### miRNA File (-im)
@@ -114,6 +116,7 @@ hsa-miR-93b-5p|
 miR-36f|
 mmu-miR-29d-3p|
 miR-29c|
+  |
 
 Example "Allowed":
 The example is a part of an original output of the MIRPIPE pipeline (Kuenne et al., 2014), which the LimiTT parameters are adjusted to.
@@ -124,6 +127,7 @@ miR-93b|52    |1.00|170|CAAGTGCTGTTCGTGCAGGTAG|33    |
 miR-36f|211   |0.00|171|ATTGAGCTATCTGTGTAG    |211   |
 miR-29d|141233|0.02|172|TAGCACCATATGAAATCAGTGT|133582|
 miR-29c|55690 |1.00|172|TAGCACCATTTGAAATCGGTTA|44200 |
+  ||||||
 
 
 #### Ranking File (-ir)
@@ -143,6 +147,7 @@ Q3UHC0|0.931454837|
 O88898|0.240325584|
 G5E870|0.47554716 |
 Q6A037|0.495874819|
+ | |
 
 ### Output
 
@@ -160,13 +165,13 @@ The order of the DBs for the binary string can be found in the first row.
 
 Example:
 
-|Database order: TarBase, miRTarBase, miRecords, starBase|
-|------|-----|-------|------|-------|------|-------------|
-|      |miR-9|miR-15a|miR-17|miR-19b|miR-24| miR-26a     |
-|A0AVK6| 0001|       |      |       |  0110|             |
-|A2A6A1|     |       |      |   1110|      |             |
-|A2AAY5|     |       |  1110|       |      | 1001        |
-|A2AHG0|     |0001   |  0101|       |      |             |
+Database order: TarBase, miRTarBase, miRecords, starBase|||||||
+------|-----|-------|------|-------|------|-------------|
+      |miR-9|miR-15a|miR-17|miR-19b|miR-24| miR-26a     |
+A0AVK6| 0001|       |      |       |  0110|             |
+A2A6A1|     |       |      |   1110|      |             |
+A2AAY5|     |       |  1110|       |      | 1001        |
+A2AHG0|     |0001   |  0101|       |      |             |
 
 		
 #### MTI Info