-
Hi, thank you for the work on this really interesting tool!
I have a set of RNA-seq samples that I'm iterating over to call TRUST4 on. What is odd is that while most samples run end-to-end without …
-
The version should be set as `1.0.2`.
https://github.com/liulab-dfci/MAESTRO/blob/1eba0a239fc38bf0687f4b66c9f5c5af07d89e74/setup.py#L50
-
GenPipes uses Sphinx to build documentation hosted at RTD. Sphinx link check mechanism can be harnessed to ensure all links mentioned in any part of GenPipes documentation are working. Add appropria…
-
https://cbioportal.mskcc.org/results/cancerTypesSummary?Action=Submit&RPPA_SCORE_THRESHOLD=2.0&Z_SCORE_THRESHOLD=2.0&cancer_study_list=mixed_lymphoma_filtered_mskcc_foundation%2Cpi_5e_95_09577_B%2Cset…
-
Hello,
It is not really an issue but more a call for help. (I wanted to ask on slack but got a 404 for this page https://nf-co.re/join/slack/).
I have not been able to understand how to configu…
-
Part 1:
Several older issues address tool-tips for Tiers, especially #246. As they have become obscured with additional comments, below is a description of new hover text we should add for Tiers. N…
-
The bam-extractor script appears to be a pre-compiled executable which sends the following error when trying to run from a mac: ./bam-extractor: cannot execute binary file
Is it possible to provide…
-
The current implementation has a potential problem. The `bedtools intersect` with `-f 1.00` will get rid of the region that is not ENTIRELY included in the `chr_limit` file. It would be more reasonabl…
-
Hi @liulab-dfci, I'm interested in trying out MAESTRO, and the Dockerfile recipe works great. One thing I noticed is that the conda recipe is currently managed under a custom channel (see https://anac…
-
The following line for calculating RP scores assumes that peaks are named as "chr_start_end" in peak matrix.
https://github.com/liulab-dfci/MAESTRO/blob/ffdfffe0a28bf8e42cf86a63697d0ab40b78ade7/MAE…