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SelectiveWholeGenomeAmplification.git
master
Parameterized sweeps of FASTA files to help locate useful primers. Work done for Penn bio research guys
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Author
2014-04-14
mkdir on lock claim
Calvin Morrison
2014-04-08
more docs and add strand
Calvin Morrison
2014-04-08
add lock
Calvin Morrison
2014-04-08
update arg info
Calvin Morrison
2014-04-07
tabular output
Calvin Morrison
2014-04-07
working output full genome.py
Calvin Morrison
2014-04-07
fix stream counting so it doesn't count over
Calvin Morrison
2014-04-07
initial commit of output_full_genome.py
Calvin Morrison
2014-04-07
add genome length
Calvin Morrison
2014-04-07
+x average_binding
Calvin Morrison
2014-04-07
fix reverse counts and output genome length
Calvin Morrison
2014-04-02
add exit codes
Calvin Morrison
2014-04-01
remove a debug line
Calvin Morrison
2014-04-01
add feature to read from previously scored all-scores file, clean up code as ...
Calvin Morrison
2014-04-01
check exit status and more error checking in check_feasilbe
Calvin Morrison
2014-03-31
fix bug in using combination file. this closes #18
Calvin Morrison
2014-03-31
add UI for scorign func, update doc and varaibles
Calvin Morrison
2014-03-31
add scorign to header and paramters and such
Calvin Morrison
2014-03-31
add custom scoring
Calvin Morrison
2014-03-31
proper sizes with custom mers
Calvin Morrison
2014-03-31
This closes bug #19. adds variables into the scoring header for later reference
Calvin Morrison
2014-03-31
Add feature to have a top-scores file. closes issue #21
Calvin Morrison
2014-03-27
Scoring all mer combinations from a file with a -m
Calvin Morrison
2014-03-27
improve output, add number of primers in first colum. this closes #12
Calvin Morrison
2014-03-27
move stuff around
Calvin Morrison
2014-03-27
Add scoring for specific combinations.
Calvin Morrison
2014-03-26
majorly rewrite and revamp the script to support runnign parts at a time
Calvin Morrison
2014-03-26
add primer_weight to our score function
Calvin Morrison
2014-03-26
use float
Calvin Morrison
2014-03-25
Score mer statistics. This closes #6
Calvin Morrison
2014-03-25
update selectivity equation, and update readme
Calvin Morrison
2014-03-25
add average binding filter
Calvin Morrison
2014-03-25
don't populate, use the bg conts from selectivity
Calvin Morrison
2014-03-25
update header
Calvin Morrison
2014-03-25
fix len
Calvin Morrison
2014-03-25
working upscore_wrapper.sh
Calvin Morrison
2014-03-25
formatting changes, pylint up in this b****
Calvin Morrison
2014-03-25
remove stray ;
Calvin Morrison
2014-03-25
start to add debug variable to score_mers
Calvin Morrison
2014-03-25
Update scoring function.
Calvin Morrison
2014-03-24
add non-functioning score wrapper
Calvin Morrison
2014-03-24
Major Updates:
Calvin Morrison
2014-03-24
use biopython's temperature calculator... slow as dirt
Calvin Morrison
2014-03-24
fix strstream to work with mers list
Calvin Morrison
2014-03-23
add mer list reading to strstream
Calvin Morrison
2014-03-21
add end of sequences in as points in our array
Calvin Morrison
2014-03-21
fix warning
Calvin Morrison
2014-03-21
add sequence length command
Calvin Morrison
2014-03-19
add output also to scores file
Calvin Morrison
2014-03-18
update scoring equation
Calvin Morrison
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