rajewsky-lab polyA issues

rajewsky-lab / polyA

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Simulation

#94 nukappa closed 8 years ago
0
Replace dummy fragment size distribution with bioanalyzer profile

#93 mschilli87 closed 8 years ago
1
Add lower bound

#92 nukappa closed 8 years ago
0
Add lower bound

#91 mschilli87 closed 8 years ago
1
Unify coordinates

#90 mschilli87 opened 8 years ago
2
Simulation

#89 nukappa closed 8 years ago
0
Enforce overlap of oligo-d(T) & poly(A) tail

#88 mschilli87 closed 8 years ago
3
Consider oligo-d(T) strech length when calculating hybridization probabilities

#87 mschilli87 opened 8 years ago
0
Improve simulations and enrich unit tests

#86 mschilli87 closed 8 years ago
1
Add lower bound

#85 mschilli87 closed 8 years ago
4
Fix numerics

#84 nukappa closed 8 years ago
0
add lower bound (don't merge)

#83 mschilli87 closed 8 years ago
4
remove read redundancy from estimate_tail_length function

#82 nukappa opened 8 years ago
2
fix numerical issues caused by eps variable

#81 mschilli87 closed 8 years ago
4
fix numerical issues caused by eps variable (wrong target branch)

#80 mschilli87 closed 8 years ago
1
remove eps from estimate_poly_tail_length

#79 mschilli87 closed 8 years ago
1
unit test fails if all simulated fragments have the same length

#78 mschilli87 closed 8 years ago
2
Improve simulations and enrich unit tests

#77 mschilli87 closed 8 years ago
4
bugs in estimation of length

#76 nukappa opened 8 years ago
2
Simulation

#75 nukappa closed 8 years ago
0
New tests [tested OK]

#74 nukappa closed 8 years ago
1
Update single utr no p ai genes

#73 nukappa closed 8 years ago
2
Update single-UTR/no-pAi gene lists

#72 mschilli87 closed 8 years ago
2
Check tests for build status

#71 nukappa closed 8 years ago
0
Fix pAi gene bug

#70 nukappa closed 8 years ago
2
Fix pAi gene bug

#69 mschilli87 closed 8 years ago
3
Check tests for build status

#68 mschilli87 closed 8 years ago
1
no pAi genes found

#67 mschilli87 closed 8 years ago
2
shift in estimations from simulated data

#66 mschilli87 closed 8 years ago
50
build status is positive even though unit test failed

#65 mschilli87 closed 8 years ago
0
New tests

#64 mschilli87 closed 8 years ago
13
switched simulation from fixed fragment size to distribution

#63 mschilli87 closed 8 years ago
7
Simulation

#62 nukappa closed 8 years ago
1
added simulation script & corresponding unit test

#61 mschilli87 closed 8 years ago
4
cast coordinates to integers

#60 nukappa opened 8 years ago
5
Build and coverage

#59 nukappa closed 8 years ago
0
Build and coverage

#58 nukappa closed 8 years ago
0
added build test & code coverage integration

#57 mschilli87 closed 8 years ago
5
tested code improvements

#56 mschilli87 closed 8 years ago
3
simulations

#55 nukappa opened 8 years ago
1
assess internal priming vs tail

#54 nukappa opened 8 years ago
0
try to assess bioanalyzer profile from data

#53 nukappa opened 8 years ago
0
identify motifs which potentially bias the tagmentation step

#52 nukappa opened 8 years ago
0
Fix utr3 annotation

#51 nukappa closed 8 years ago
0
fix & extend 3' UTR annotation

#50 mschilli87 closed 8 years ago
0
discretization of bioanalyzer needs debugging

#49 nukappa closed 8 years ago
3
code works when no pAi are present

#48 nukappa closed 8 years ago
0
code works when no pAi are present

#47 nukappa closed 8 years ago
0
add pAi infos in coverage ggplots

#46 nukappa opened 8 years ago
0
3' UTR extension re-based on latest master

#45 mschilli87 closed 8 years ago
0