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Extended standalone #63

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msahraeian wants to merge 99 commits into postprocess_dedup_filter from extended_standalone

Contributor

msahraeian commented Apr 22, 2020

Use extra features in both standalone and ensemble modes.

Sahraeian and others added 13 commits

March 6, 2020 12:54


          added new scripts for extending standalone features

9e14ec5


          fix for dbsnp


          Merge branch 'postprocess_dedup_filter' into extended_standalone

046b123


          fix_extract_ensemble

9cb9960


          Merge branch 'postprocess_dedup_filter' into extended_standalone

19b8512


          fix dirnames

58ccf62


          Merge branch 'postprocess_dedup_filter' into extended_standalone

db2312e


          small fix

cab5ff7


          Merge branch 'postprocess_dedup_filter' into extended_standalone

c53f74e


          fix features

efa4190


          Merge branch 'postprocess_dedup_filter' into extended_standalone

0ed0e83


          fix ensemble

e4be780


          backward compatiblity for call.py

8fc8583

msahraeian requested a review from marghoob

April 22, 2020 00:16

Contributor Author

msahraeian commented Apr 22, 2020

@marghoob please take a look. I am still generating models suited for this new settings.

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marghoob commented Apr 26, 2020

@msahraeian please have a look at the comments. Thanks.

Sahraeian and others added 6 commits

April 28, 2020 13:35


          Merge branch 'postprocess_dedup_filter' into extended_standalone

7514b31


          few fixes

8e8ec69


          fix format

2a84509


          small fix

5581ba4


          fix for training loss

115d814


          Merge branch 'postprocess_dedup_filter' into extended_standalone

c848028

Sahraeian and others added 30 commits

June 23, 2020 17:08


          fix in resolve variants

fb6ea21


          ensemble with internal features

1bf40b4


          fix resolve

2471f8e


          small fix

544e2f2


          small fix

96d2091


          repeat extension

fd2a2f7


          small fix

cca94c8


          improve cpu multi-thread call.py

b4d2bdf


          small fix

a359327


          updated dockerfile

f6d3174


          updated docker test

accb759


          fix build

9f5d876


          small_fix

e500bf7


          force cov_thr

e48e15d


          fix max_cov

a96a236


          fixed matrices gradual delete

d804742


          fix generate_dataset

45fbcd6


          fix ensemble rounding

cff3653


          reduce disc I/O while calling

603d582


          Updated README

d8738f0


          fix README

e8f9f04


          added uint16 as an option for input matrices

088c845


          fixed uint16

47ac4da


          added report_all_alleles

d948d08


          added strict_labeling

798c880


          fixed strict_labeling

cdfc062


          fixed strict_labeling

74a27df


          small fix

a2eed5e


          fixed strict_labeling

399b15c


          small fix for strict_labeling

13c45b7

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