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fix SelectBestHitTranscript for naive search

Idea things (?)

Fix first source and last sink

Idea things (?)

Using complete event information

Organizing code. Added event code and splice chain in the hit selection

change methods positions

Inserted overlapped events string

New Header; New Event-based Output

New Header; New Event-based Output

Merge remote-tracking branch 'origin/vitor_dev_fix1' into vitor_dev_fix1

Check whether it is Exhaustive Search

Local search on Constitutive Domains Search

update astafunk readme

official website

README file for AstaFunk

    • -0
    • +68
    /README.astafunk.txt
method to test alignment

New options for the method to test alignment

Creating method to select hits for FASTA sequences

Creating method to test alignment method

Creating method to test alignment

tags for statistics

tags for statistics

Add synchronized to allow multi-thread sequence translation (RandomAcessFile)

Add synchronized to allow multi-thread sequence translation (RandomAcessFile)

Check null event list

Tags to compute Statistics

Fix Best Gene Hit to accept overlapped alignments from different HMMs

Test for null hitlist

test