48cc0aa29826d6f6e99357a12eda728d76a7d132 markd Fri May 17 02:31:33 2024 -0700 fixed error in pslSpliceJunctions TSV header diff --git src/utils/pslSpliceJunctions/tests/expected/rnahg38Test.tsv src/utils/pslSpliceJunctions/tests/expected/rnahg38Test.tsv index 457ae7b..4af7e72 100644 --- src/utils/pslSpliceJunctions/tests/expected/rnahg38Test.tsv +++ src/utils/pslSpliceJunctions/tests/expected/rnahg38Test.tsv @@ -1,64 +1,64 @@ -qName qStart qEnd qSize tName tStart End Size strand iBlk tGapIdx tGapSize junc5p junc3p isCannon +qName qStart qEnd qSize tName tStart tEnd tSize strand iBlk tGapIdx tGapSize junc5p junc3p isCannon mm_NM_011041.3 249 259 4334 chr14 36661696 36661963 107043718 + 0 0 267 tg tc 0 mm_NM_011041.3 270 271 4334 chr14 36661952 36661977 107043718 + 1 1 25 tc ct 0 mm_NM_011041.3 281 334 4334 chr14 36661967 36662093 107043718 + 2 2 126 gg gg 0 mm_NM_011041.3 394 394 4334 chr14 36662033 36663374 107043718 + 3 3 1341 GT AG 1 mm_NM_011041.3 872 889 4334 chr14 36662896 36663401 107043718 + 4 4 505 gt gg 0 mm_NM_011041.3 896 903 4334 chr14 36663394 36663524 107043718 + 5 5 130 cg cc 0 mm_NM_011041.3 1022 1022 4334 chr14 36663405 36666601 107043718 + 6 6 3196 ta tc 0 mm_NM_011041.3 1164 1164 4334 chr14 36666459 36676457 107043718 + 7 7 9998 GT AG 1 mm_NM_011041.3 1424 1481 4334 chr14 36676197 36676616 107043718 + 8 8 419 aa tc 0 mm_NM_011041.3 1573 1616 4334 chr14 36676524 36676889 107043718 + 9 9 365 ct tg 0 mm_NM_011041.3 1852 1870 4334 chr14 36676653 36676970 107043718 + 10 10 317 tt cc 0 mm_NM_011041.3 1939 1939 4334 chr14 36676901 36676988 107043718 + 11 11 87 tt ga 0 mm_NM_011041.3 1953 1984 4334 chr14 36676974 36677020 107043718 + 12 12 46 aa at 0 mm_NM_011041.3 2067 2067 4334 chr14 36677020 36677114 107043718 + 14 13 94 tc tt 0 mm_NM_011041.3 2084 2084 4334 chr14 36677097 36677127 107043718 + 15 14 30 cg tc 0 mm_NM_011041.3 2090 2094 4334 chr14 36677121 36677149 107043718 + 16 15 28 gt tg 0 mm_NM_011041.3 2107 2134 4334 chr14 36677136 36677185 107043718 + 17 16 49 ta cc 0 mm_NM_011041.3 2140 2140 4334 chr14 36677179 36677201 107043718 + 18 17 22 ta at 0 mm_NM_011041.3 2153 2155 4334 chr14 36677188 36677223 107043718 + 19 18 35 tt tt 0 mm_NM_011041.3 2176 2185 4334 chr14 36677202 36677283 107043718 + 20 19 81 ca tg 0 mm_NM_011041.3 2234 2240 4334 chr14 36677234 36677333 107043718 + 21 20 99 ca tt 0 mm_NM_011041.3 2283 2295 4334 chr14 36677290 36677353 107043718 + 22 21 63 AT AC 1 mm_NM_011041.3 2307 2307 4334 chr14 36677341 36677360 107043718 + 23 22 19 ga ga 0 mm_NM_011041.3 2361 2412 4334 chr14 36677360 36677474 107043718 + 25 23 114 ca gg 0 mm_NM_011041.3 2429 2440 4334 chr14 36677457 36677500 107043718 + 26 24 43 ta tt 0 mm_NM_011041.3 2460 2493 4334 chr14 36677500 36677528 107043718 + 28 25 28 ca tg 0 mm_NM_011041.3 2508 2515 4334 chr14 36677513 36677605 107043718 + 29 26 92 gt ta 0 mm_NM_011041.3 2586 2624 4334 chr14 36677534 36677652 107043718 + 30 27 118 aa tg 0 mm_NM_011041.3 2666 2670 4334 chr14 36677652 36677739 107043718 + 32 28 87 tt tt 0 mm_NM_011041.3 2750 2854 4334 chr14 36677752 36677881 107043718 + 35 29 129 cc tg 0 mm_NM_011041.3 2871 3321 4334 chr14 36677864 36678372 107043718 + 36 30 508 gt ta 0 mm_NM_011041.3 3380 3380 4334 chr14 36678313 36678414 107043718 + 37 31 101 at at 0 mm_NM_011041.3 3420 3431 4334 chr14 36678374 36678436 107043718 + 38 32 62 ag tg 0 mm_NM_011041.3 3448 3534 4334 chr14 36678419 36678549 107043718 + 39 33 130 tc ca 0 mm_NM_011041.3 3564 3614 4334 chr14 36678519 36678639 107043718 + 40 34 120 tc at 0 mm_NM_011041.3 3625 3709 4334 chr14 36678628 36678733 107043718 + 41 35 105 gc tg 0 mm_NM_011041.3 3716 3716 4334 chr14 36678726 36678743 107043718 + 42 36 17 gc gc 0 mm_NM_011041.3 3724 3724 4334 chr14 36678735 36678774 107043718 + 43 37 39 at tt 0 mm_NM_011041.3 3752 3752 4334 chr14 36678746 36678782 107043718 + 44 38 36 ct tc 0 mm_NM_011041.3 3759 4158 4334 chr14 36678775 36679204 107043718 + 45 39 429 aa tt 0 mm_NM_011041.3 4204 4227 4334 chr14 36679204 36679265 107043718 + 47 40 61 tt tt 0 mm_NM_011041.3 4232 4232 4334 chr14 36679260 36679368 107043718 + 48 41 108 gg ag 0 NM_001172766.3 546 546 6540 chr7 114414814 114426679 159345973 + 0 0 11865 GT AG 1 NM_001172766.3 724 724 6540 chr7 114426501 114534706 159345973 + 1 1 108205 GT AG 1 NM_001172766.3 814 814 6540 chr7 114534616 114628677 159345973 + 2 2 94061 GT AG 1 NM_001172766.3 952 952 6540 chr7 114628539 114630005 159345973 + 3 3 1466 GT AG 1 NM_001172766.3 1153 1153 6540 chr7 114629804 114631705 159345973 + 4 4 1901 GT AG 1 NM_001172766.3 1328 1328 6540 chr7 114631530 114642623 159345973 + 5 5 11093 GT AG 1 NM_001172766.3 1542 1542 6540 chr7 114642409 114644789 159345973 + 6 6 2380 GT AG 1 NM_001172766.3 1647 1647 6540 chr7 114644684 114652290 159345973 + 7 7 7606 GT AG 1 NM_001172766.3 1735 1735 6540 chr7 114652202 114654009 159345973 + 8 8 1807 GT AG 1 NM_001172766.3 1819 1819 6540 chr7 114653925 114658267 159345973 + 9 9 4342 GT AG 1 NM_001172766.3 2021 2021 6540 chr7 114658065 114659432 159345973 + 10 10 1367 GT AG 1 NM_001172766.3 2098 2098 6540 chr7 114659355 114659673 159345973 + 11 11 318 GT AG 1 NM_001172766.3 2200 2200 6540 chr7 114659571 114662186 159345973 + 12 12 2615 GT AG 1 NM_001172766.3 2322 2322 6540 chr7 114662064 114663519 159345973 + 13 13 1455 GT AG 1 NM_001172766.3 2392 2392 6540 chr7 114663449 114664436 159345973 + 14 14 987 GT AG 1 NM_001172766.3 2556 2556 6540 chr7 114664272 114693765 159345973 + 15 15 29493 GT AG 1 NM_001244583.2 125 125 6301 chr7 115956678 115968309 159345973 - 0 0 11631 GT AG 1 NM_001244583.2 240 240 6301 chr7 115954585 115956793 159345973 - 1 1 2208 GT AG 1 NM_001244583.2 297 297 6301 chr7 115950873 115954642 159345973 - 2 2 3769 GT AG 1 NM_001244583.2 373 373 6301 chr7 115941892 115950949 159345973 - 3 3 9057 GT AG 1 NM_001244583.2 521 521 6301 chr7 115935151 115942040 159345973 - 4 4 6889 GT AG 1