Hi,
I am new to using Delly, and trying to figure out what it's output means in human terms so that I can write a script to annotate it. Here is an example output of the deletions:
HWI-ST885:8214D0ACXX:6:1301:8077:53399 81 GL397261 3815017 37 = 3813982 -1134 Library0
HWI-ST885:8214D0ACXX:6:2108:4240:66697 97 GL397261 3814043 37 = 3815021 1077 Library0
HWI-ST885:8214D0ACXX:6:1205:15152:6125 81 GL397261 3815026 37 = 3814044 -1081 Library0
HWI-ST885:8214D0ACXX:6:2105:17871:91060 81 GL397261 3814993 96 = 3814054 -1026 Library0
---------------------------------------------
GL397261 3814154 3814993 839 4 38.2494 >Deletion_xxx_00000031<
I get the last part after the 4 calls (i.e., after the dashes) which is saying there is a 839 bp log deletion from GL397261 from the 4 calls with an average.mapping quality of 38.2494
My question is how does it make this decision, it does not make sense to me. Any help would be much appreciated.
I am new to using Delly, and trying to figure out what it's output means in human terms so that I can write a script to annotate it. Here is an example output of the deletions:
HWI-ST885:8214D0ACXX:6:1301:8077:53399 81 GL397261 3815017 37 = 3813982 -1134 Library0
HWI-ST885:8214D0ACXX:6:2108:4240:66697 97 GL397261 3814043 37 = 3815021 1077 Library0
HWI-ST885:8214D0ACXX:6:1205:15152:6125 81 GL397261 3815026 37 = 3814044 -1081 Library0
HWI-ST885:8214D0ACXX:6:2105:17871:91060 81 GL397261 3814993 96 = 3814054 -1026 Library0
---------------------------------------------
GL397261 3814154 3814993 839 4 38.2494 >Deletion_xxx_00000031<
I get the last part after the 4 calls (i.e., after the dashes) which is saying there is a 839 bp log deletion from GL397261 from the 4 calls with an average.mapping quality of 38.2494
My question is how does it make this decision, it does not make sense to me. Any help would be much appreciated.
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