chipseq_analysis issueshttps://git.biohpc.swmed.edu/BICF/Astrocyte/chipseq_analysis/-/issues2020-12-29T17:26:45-06:00https://git.biohpc.swmed.edu/BICF/Astrocyte/chipseq_analysis/-/issues/90Strip spaces in design file2020-12-29T17:26:45-06:00Venkat MalladiStrip spaces in design fileStrip leading or trailing spaces in design fileStrip leading or trailing spaces in design file2.0.0https://git.biohpc.swmed.edu/BICF/Astrocyte/chipseq_analysis/-/issues/89Diffbind is tsv not csv2020-12-29T17:23:49-06:00Venkat MalladiDiffbind is tsv not csvDiffbind output is actually tsv not csv file forat.Diffbind output is actually tsv not csv file forat.2.0.0https://git.biohpc.swmed.edu/BICF/Astrocyte/chipseq_analysis/-/issues/62Filter reads increase memory2020-12-29T17:30:29-06:00Venkat MalladiFilter reads increase memoryIncrease memory allocation upon failure:
https://github.com/nf-core/chipseq/blob/master/conf/base.config
https://www.nextflow.io/docs/latest/process.html?highlight=retryIncrease memory allocation upon failure:
https://github.com/nf-core/chipseq/blob/master/conf/base.config
https://www.nextflow.io/docs/latest/process.html?highlight=retry2.0.0Jeremy MathewsJeremy Mathewshttps://git.biohpc.swmed.edu/BICF/Astrocyte/chipseq_analysis/-/issues/44diffbind design file error2020-06-23T15:51:25-05:00Spencer Barnesdiffbind design file errorThe step that creates the diffbind design file copies the SampleID column into the Condition column. This causes an error since this causes diffbind to compare N different conditions instead of the expected 2 or 3. Possible fix would cha...The step that creates the diffbind design file copies the SampleID column into the Condition column. This causes an error since this causes diffbind to compare N different conditions instead of the expected 2 or 3. Possible fix would change the diffbind script to compare Factor or Treatment as default.2.0.0Spencer BarnesSpencer Barneshttps://git.biohpc.swmed.edu/BICF/Astrocyte/chipseq_analysis/-/issues/92Insert vizapp code2021-08-05T10:22:15-05:00Erand SmakajInsert vizapp codeThe R Scripts for vizapp (server.R and ui.R) seem to contain incorrect code (it contains the HTML for gitlab login page instead of R scripts)
Please substitute with the correct vizapp code.
https://git.biohpc.swmed.edu/BICF/Astrocyte/c...The R Scripts for vizapp (server.R and ui.R) seem to contain incorrect code (it contains the HTML for gitlab login page instead of R scripts)
Please substitute with the correct vizapp code.
https://git.biohpc.swmed.edu/BICF/Astrocyte/chipseq_analysis/-/tree/dev/vizapp