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ChangeLog
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2020-01-14 Ryuichiro Nakato <[email protected]>
Version 3.7.2
- Parse2wig: bug fix in pw_makefile.c (wigarray overflow)
2019-04-15 Ryuichiro Nakato <[email protected]>
Version 3.7.1
- Parse2wig: accect CRAM format for input (use "-f BAM" option)
- script/makegenometable.pl: accept scaffold in Ensembl genome
2019-02-07 Ryuichiro Nakato <[email protected]>
Version 3.7.0
- Peak calling: change the criteria of all thresholds from "more than threshold (>)" to "more than or equal to threshold (>=)" to accept the peak regions that do not contain any Input reads
2018-12-05 Ryuichiro Nakato <[email protected]>
Version 3.6.0
- Peak calling: add the new column "IP/Input enrichment" in a xls file
2018-08-07 Ryuichiro Nakato <[email protected]>
Version 3.5.2
- bug fix: buffer overflow in HEATMAP command
2018-06-23 Ryuichiro Nakato <[email protected]>
Version 3.5.1
- bug fix of the segmentation fault when the input file has no or very small mapped reads
2018-05-19 Ryuichiro Nakato <[email protected]>
Version 3.4.3
- PROFILE: bug fix of CI visualization when supplying "-ntype 1"
2018-04-08 Ryuichiro Nakato <[email protected]>
Version 3.4.2
- CG: add "around TSS" column
2018-04-08 Ryuichiro Nakato <[email protected]>
Version 3.4.1
- bug fix of double overflow in p-value calculation
2018-03-16 Ryuichiro Nakato <[email protected]>
Version 3.4.0
- bug fix of "-nofilter" that did not work
- add "-showzero" option that shows zero-value regions in wig and bedGraph files outputted by parse2wig and drompa_peakcall
2017-12-21 Ryuichiro Nakato <[email protected]>
Version 3.3.1
- bug fix for "-show_itag 2"
- Modify Manual.pdf
2017-11-24 Ryuichiro Nakato <[email protected]>
Version 3.3.0
- add new command MULTICI that outputs accumulated ChIP intensities of the specified bed sites
- modify HEATMAP command to handle large -cw
- change postfixes of CI, FRIP, TR and CG commands from .xls to .csv
2017-11-14 Ryuichiro Nakato <[email protected]>
Version 3.2.7
- change filename of binarray.xls to <binsize>.binarray.xls
- bug fix in drompa_peakcall PC_ENRICH command
2017-3-22 Ryuichiro Nakato <[email protected]>
Version 3.2.6
- bug fix for PROFILE command
2017-1-31 Ryuichiro Nakato <[email protected]>
Version 3.2.5
- bug fix for calculating FRiP score
2016-11-29 Ryuichiro Nakato <[email protected]>
Version 3.2.4
- modify Usage of drompa_peakcall
- add "not normalized" for -ntype option of PROFILE command
2016-03-29 Ryuichiro Nakato <[email protected]>
Version 3.2.3
- bug fix when using -ioverlay option
- delete memtest.h
2016-02-08 Ryuichiro Nakato <[email protected]>
Version 3.2.2
- add -genefile and -len_genefile options for drompa_draw
2016-02-02 Ryuichiro Nakato <[email protected]>
Version 3.2.1
- bug fix for calculating genome coverage when using -mp option.
2016-01-29 Ryuichiro Nakato <[email protected]>
Version 3.2.0
- add new option -viz: semitransparent color vizualization
- add new option -ioverlay: overlay two sample profiles in each line
- add new options -offylab and -offymem: delete Y-axis label and memory, respectively.
- bug fix for calculating library complexity.
2016-01-04 Ryuichiro Nakato <[email protected]>
Version 3.1.1
- bug fix in parse2wig: calculating genome coverage
2015-12-24 Ryuichiro Nakato <[email protected]>
Version 3.1.0
- improve pdf creating and change the tool for marging pdf files from pdftk to cpdf (Coherent PDF) because pdftk is no longer supported on several OS (e.g., CentOS 7).
2015-06-10 Ryuichiro Nakato <[email protected]>
3.0.0 (Beta) first commit.
2015-01-06 Ryuichiro Nakato <[email protected]>
Version 2.6.4
- Readd 'script' directory (it was mistakenly deleted)
- Fix the problem that the compliation error occurs in 32-bit OS.