efischer
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  • Joined on 2020-05-21
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efischer released BiGpairSEQ_Sim v4.0 at efischer/BiGpairSEQ 2022-09-28 08:04:16 +00:00
efischer pushed tag v4.0 to efischer/BiGpairSEQ 2022-09-28 08:04:15 +00:00
efischer pushed to master at efischer/BiGpairSEQ 2022-09-28 08:02:08 +00:00
b7c86f20b3 Add read depth attributes to graphml output
3a47efd361 Update TODO
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efischer pushed to master at efischer/BiGpairSEQ 2022-09-28 07:28:28 +00:00
58bb04c431 Remove redundant toString() calls
610da68262 Refactor Vertex class to use SequenceRecords
9973473cc6 Make serializable and implement getWellOccupancies method
8781afd74c Reorder conditional
88b6c79caa Refactor to simplify graph creation code
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efischer pushed to master at efischer/BiGpairSEQ 2022-09-27 21:40:03 +00:00
5bd1e568a6 update TODO
4ad1979c18 Add read depth simulation options to CLI
423c9d5c93 Add read depth simulation options to CLI
7c3c95ab4b update TODO in readme
d71a99555c clean up metadata
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efischer pushed to master at efischer/BiGpairSEQ 2022-09-26 00:07:57 +00:00
d1a56c3578 Hand-merge of some things from Dev_Vertex branch that didn't make it in for some reason
efischer pushed to master at efischer/BiGpairSEQ 2022-09-25 23:34:21 +00:00
16daf02dd6 Merge branch 'Dev_Vertex'
04a077da2e update Readme
740835f814 fix typo
8a77d53f1f Output sequence counts before and after pre-filtering (currently pre-filtering only sequences present in all wells)
58fa140ee5 add comments
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efischer pushed to master at efischer/BiGpairSEQ 2022-09-22 06:40:01 +00:00
5c03909a11 Restore pre-filtering of singleton and saturating sequences
efischer released BiGpairSEQ 3.0 at efischer/BiGpairSEQ 2022-09-22 05:09:28 +00:00
efischer pushed tag v3.0 to efischer/BiGpairSEQ 2022-09-22 05:09:28 +00:00
efischer pushed to master at efischer/BiGpairSEQ 2022-09-22 05:01:29 +00:00
e4e5a1f979 update version number
73c83bf35d Add comment on map data encodng
06e72314b0 Reword option menu item
63317f2aa0 Reword output message
a054c0c20a update TODO
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efischer pushed to master at efischer/BiGpairSEQ 2022-09-21 18:30:34 +00:00
3ba305abdb Update ToDo
efischer pushed to master at efischer/BiGpairSEQ 2022-09-21 18:16:54 +00:00
3707923398 Merge remote-tracking branch 'origin/master'
cf771ce574 parameterized sequence indices
1df86f01df parameterized sequence indices
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efischer pushed to master at efischer/BiGpairSEQ 2022-09-21 18:09:40 +00:00
f980722b56 update TODO
efischer pushed to master at efischer/BiGpairSEQ 2022-03-04 22:14:21 +00:00
96ba57d653 Remove singleton sequences from wells in initial filtering
b602fb02f1 Remove obsolete comments
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efischer pushed to master at efischer/BiGpairSEQ 2022-03-03 05:21:59 +00:00
325e1ebe2b Add data on randomized well population behavior
efischer pushed to master at efischer/BiGpairSEQ 2022-03-03 04:54:20 +00:00
df047267ee Add data on randomized well population behavior
efischer pushed to master at efischer/BiGpairSEQ 2022-03-03 01:59:08 +00:00
03e8d31210 Add data on randomized well population behavior
582dc3ef40 Update readme
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efischer pushed to master at efischer/BiGpairSEQ 2022-03-01 21:27:07 +00:00
4c872ed48e Add optional stdout print flags
3fc39302c7 Add detail to error message
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efischer pushed to master at efischer/BiGpairSEQ 2022-03-01 21:08:46 +00:00
578bdc0fbf clarify help menu text