Ecosyste.ms: Issues

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GitHub / Dowell-Lab/DAStk issues and pull requests

#40 - Error about differential_md_score.py line 273

Issue - State: open - Opened by hongjianjin 4 months ago

#37 - tf_result_explanations error

Issue - State: closed - Opened by sngholee 8 months ago - 2 comments

#36 - Issue while trying to generate MA plot and barcode plot. PLEASE HELP!

Issue - State: closed - Opened by Divya6805 9 months ago - 3 comments

#35 - Not able to generate MA plot and Barcode Plot

Issue - State: closed - Opened by Divya6805 9 months ago - 3 comments

#34 - Invalid links for the pre-scanned motif files

Issue - State: closed - Opened by jcbusch 11 months ago - 2 comments

#33 - Issue with atac_process

Issue - State: closed - Opened by chlazaris over 1 year ago - 13 comments

#32 - Error while create MD score file

Issue - State: closed - Opened by HieuNg1598 almost 2 years ago - 1 comment

#31 - Syntax Error in tf_intersect.py

Issue - State: closed - Opened by andrewbcaldwell over 4 years ago - 3 comments

#30 - process_atac issue

Issue - State: closed - Opened by daramirez over 4 years ago - 1 comment

#29 - Columns produced by differential_md_score function

Issue - State: closed - Opened by TobyGurran over 4 years ago - 3 comments
Labels: documentation

#28 - Throw an error if both --genome and --chromosomes are specified

Issue - State: closed - Opened by ignaciot over 4 years ago - 2 comments
Labels: to do

#27 - Error in performing process_atac

Issue - State: closed - Opened by arnavgupta06754 almost 5 years ago - 11 comments

#26 - Bug fixes

Pull Request - State: closed - Opened by magruca almost 5 years ago

#25 - Incorrect Shebang for Executables

Issue - State: closed - Opened by zmaas almost 5 years ago - 1 comment

#24 - no error if there are no motif files in the dir

Issue - State: closed - Opened by maallen3 about 5 years ago - 2 comments

#23 - Hardcoded X-axis label

Issue - State: closed - Opened by LuisSoares about 5 years ago - 1 comment

#22 - Bugfix - Variable name typo as reported in #21

Pull Request - State: closed - Opened by magruca about 5 years ago

#21 - control_barcode should be control_barcodes in barcode_plot.py

Issue - State: closed - Opened by joshuamb about 5 years ago - 4 comments

#20 - Need to fix barcode labels for filenames with long names in differential_atac

Issue - State: closed - Opened by magruca about 5 years ago - 1 comment

#19 - Need to implement more checks before starting job

Issue - State: closed - Opened by magruca about 5 years ago - 1 comment

#18 - Dastk breaks without scikit-learn and futures

Issue - State: closed - Opened by tiagobrc about 5 years ago - 2 comments
Labels: bug

#17 - Ability to manually provide genome description

Issue - State: closed - Opened by ignaciot over 5 years ago - 2 comments
Labels: enhancement

#16 - Git clone installation method in README points to wrong commit

Issue - State: closed - Opened by rdbcasillas over 5 years ago - 1 comment

#15 - replicate handling

Issue - State: open - Opened by magruca over 5 years ago - 3 comments
Labels: enhancement

#14 - Add window size flag

Issue - State: closed - Opened by andrewbcaldwell over 5 years ago - 2 comments
Labels: enhancement, to do

#13 - Add version flag

Issue - State: closed - Opened by ignaciot over 5 years ago - 2 comments
Labels: enhancement

#12 - Bootstrap

Pull Request - State: closed - Opened by ignaciot over 5 years ago

#11 - Bugfix #10: Prevented accidental over-counting of overlapping regions…

Pull Request - State: closed - Opened by ignaciot over 5 years ago

#10 - Possible scenarios for overcounting overlaps with motif sites

Issue - State: closed - Opened by ignaciot over 5 years ago - 1 comment
Labels: bug

#9 - Enhancement #8: New params to provide labels for the MA plot.

Pull Request - State: closed - Opened by ignaciot over 5 years ago

#8 - New parameters to provide a text label for assays 1 and 2

Issue - State: closed - Opened by ignaciot over 5 years ago - 1 comment
Labels: enhancement

#7 - New parameter to produce a tsv of all MD-scores, sorted by p-value

Issue - State: closed - Opened by ignaciot over 5 years ago - 1 comment
Labels: enhancement

#6 - try alternative to pooled variance

Issue - State: closed - Opened by magruca over 5 years ago - 2 comments

#5 - value error... change to float?

Issue - State: closed - Opened by magruca over 5 years ago - 3 comments
Labels: bug

#4 - output changes in differential MDS

Issue - State: closed - Opened by magruca over 5 years ago - 3 comments
Labels: doing, addition