 WangNing | 145cf4c02ff | update description | | |
WangNing | 0871be9c024 | update description | | |
WangNing | addd9aa2d4c | update description | | |
WangNing | 0742ef0bc57 | update description | | |
WangNing | 65d4213ca50 | update description | | |
WangNing | c2f27820dfaM | Merge https://atlassian.petermac.org.au/bitbucket/scm/sjdaw/mismatchfinder into main | | |
WangNing | dd656b989f6 | update description | | |
 Dineika Chandrananda | 687f6a670fb | README.md edited to include more information on how to run MisMatchFinder on test data | | |
WangNing | b0f4e1218ad | update description | | |
WangNing | de20ea1d79b | update description | | |
WangNing | 1ec7d49ad76 | update description | | |
WangNing | def5f227a01 | update description | | |
WangNing | 13cf0847272 | update description | | |
WangNing | 22dbf28bc7f | update description | | |
WangNing | afc8b263d33 | update description | | |
WangNing | dd336a4e5ba | update description | | |
WangNing | ad9873f5ce7 | update description | | |
WangNing | c790de995ec | update description | | |
WangNing | 2769ff4be23 | add MisMatchFinder binary | | |
WangNing | cdea32a915b | delete | | |
WangNing | adbe19ff20e | add MisMatchFinder running section | | |
WangNing | 8e23402c19c | modify bitbucket repo | | |
 Sebastian Hollizeck | 2df198a817c | added examples analysis to readme | | |
Sebastian Hollizeck | a423592d4ee | removed unused imports | | |
  SebastianHollizeck | 22cde8e79ad | Create README.md | | |
Sebastian Hollizeck | 98144c336a2 | unified parameter with underscores | | |
Sebastian Hollizeck | dd1d30767c8 | Fixed a bug where single end stats were not reported | | |
Sebastian Hollizeck | 3c05562a23d | added additional logging outputwill now count more reasons why a read was not considered | | |
Sebastian Hollizeck | 74f60c50ec1 | Removed duplicate parameter parsing | | |
 Sebastian Hollizeck | 9de59371bbb | expose additional parameter to CLI | | |
Sebastian Hollizeck | ae9d39f1961 | Disabled tsv output for now | | |
Sebastian Hollizeck | e166cccad00 | initialise vcf, before writing | | |
Sebastian Hollizeck | 9e13eb0d378 | report fragment size counts | | |
Sebastian Hollizeck | f077006b485 | change default fragment size | | |
Sebastian Hollizeck | 99b4218864f | only report somatic if filtering | | |
Sebastian Hollizeck | beddc2eb695 | germline filtering is optional now | | |
Sebastian Hollizeck | f67a5e494bc | more verbose warning when reads are unpaired | | |
Sebastian Hollizeck | 7733051d03b | allow cloning | | |
Sebastian Hollizeck | cd578d4398d | fragment with vector of reads instead of fields | | |
Sebastian Hollizeck | 6824cab680b | added abilities for single end reads | | |
Sebastian Hollizeck | c5e811497ee | added a break when printing inmatched paired reads | | |
Sebastian Hollizeck | 3971e7c72f6 | change to simple_logger | | |
Sebastian Hollizeck | 92121f2f360 | more logging changes | | |
Sebastian Hollizeck | 065454f4ecc | added more debug logging | | |
Sebastian Hollizeck | 26d9ff0cc0b | change to proper logging | | |
Sebastian Hollizeck | c49dbcbce38 | clean up and compressed vcf output | | |
Sebastian Hollizeck | 7bb5eee87c3 | enable check for output before analysis | | |
Sebastian Hollizeck | 3304371c3ab | allow specification of the germline file | | |
Sebastian Hollizeck | 8edca14255c | Adding required support files | | |
Sebastian Hollizeck | 1c128483c5e | Built core functionalitynow with indel detection | | |
