Owner
daisybio
25 indexed repositories · View on GitHub
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drevalpy
DrEval is a toolkit that ensures drug response prediction evaluations are statistically sound, biologically meaningful, and reproducible.
Python · 44 stars
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data-leakage-ppi-prediction
Code associated with the paper 'Cracking the blackbox of deep sequence-based protein-protein interaction prediction'
C++ · 33 stars
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NEASE
A network-based approach for exon set enrichment
Python · 15 stars
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TF-Prioritizer
Bioinformatics pipeline to identify differentially active transcription factors between conditions using expression and epigenetic data
Java · 14 stars
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SPONGE
Sparse Partial correlation ON Gene Expression - an R package for fast and robust ceRNA network inference
R · 14 stars
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DIGGER
Exploring Isoform-specific interactions
Python · 13 stars
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epigen
EpiGEN: an epistasis simulation pipeline
Python · 12 stars
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ASimulatoR
ASimulatoR: splice-aware RNA-seq data simulation https://doi.org/10.1093/bioinformatics/btab142
R · 11 stars
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R · 11 stars
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PPI_prediction_study
Code associated with the paper 'Deep learning models for unbiased sequence-based PPI prediction plateau at an accuracy of 0.65'
Python · 11 stars
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Jupyter Notebook · 10 stars
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PRONE
R Package for preprocessing, normalizing, and analyzing proteomics data
R · 8 stars
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C++ · 7 stars
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keypathwayminer-R
R package for de novo pathway enrichment using KeyPathwayMiner
R · 5 stars
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HiTSeekR
An R shiny web application for the analysis of various types of high-throughput screening data
R · 5 stars
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cyanus
A Systematic Comparison of Differential Analysis Methods for CyTOF Data & CYANUS App
R · 5 stars
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R · 3 stars
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preprocess_drp_data
This project contains all steps necessary to get from the original data repositories of CCLE/GDSC/… to usable input files.
Jupyter Notebook · 3 stars
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PRONE.Shiny
Code of the R Shiny App of the PRONE R Package.
R · 2 stars
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mirtargetbenchmark
R package to benchmark sequence based target prediction tools
HTML · 1 star
- 5 more repositories live on View on GitHub
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enhancement
daisybio/ASimulatoR#1 · 0 comments · 0 reactions · 0 assignees ·
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good first issue
daisybio/ASimulatoR#4 · 5 comments · 0 reactions · 0 assignees ·
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daisybio/ASimulatoR#9 · 1 comment · 0 reactions · 0 assignees ·
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daisybio/mirtargetbenchmark#1 · 0 comments · 0 reactions · 1 assignee ·
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daisybio/website#1 · 1 comment · 0 reactions · 0 assignees ·
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daisybio/epigen#3 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
daisybio/keypathwayminer-R#3 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
daisybio/housekeepr#1 · 0 comments · 0 reactions · 0 assignees ·
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NDEx support Openenhancement
daisybio/keypathwayminer-web#1 · 0 comments · 0 reactions · 1 assignee ·
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bug
daisybio/keypathwayminer-web#3 · 0 comments · 0 reactions · 1 assignee ·
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security
daisybio/keypathwayminer-web#4 · 5 comments · 0 reactions · 1 assignee ·
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bug
daisybio/keypathwayminer-web#6 · 0 comments · 0 reactions · 1 assignee ·
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enhancement
daisybio/keypathwayminer-web#8 · 0 comments · 0 reactions · 1 assignee ·
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daisybio/keypathwayminer-web#9 · 0 comments · 0 reactions · 0 assignees ·
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daisybio/keypathwayminer-web#10 · 0 comments · 0 reactions · 0 assignees ·
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daisybio/keypathwayminer-web#11 · 0 comments · 0 reactions · 0 assignees ·
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daisybio/keypathwayminer-web#12 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
daisybio/data-leakage-ppi-prediction#6 · 0 comments · 0 reactions · 0 assignees ·
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daisybio/data-leakage-ppi-prediction#8 · 1 comment · 0 reactions · 0 assignees ·
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enhancement
daisybio/TF-Prioritizer#60 · 0 comments · 0 reactions · 1 assignee ·
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enhancement
daisybio/TF-Prioritizer#64 · 2 comments · 0 reactions · 1 assignee ·
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enhancement question
daisybio/TF-Prioritizer#65 · 3 comments · 0 reactions · 1 assignee ·
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enhancement
daisybio/TF-Prioritizer#66 · 6 comments · 0 reactions · 1 assignee ·
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discussion
daisybio/TF-Prioritizer#67 · 6 comments · 0 reactions · 0 assignees ·
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enhancement
daisybio/TF-Prioritizer#69 · 0 comments · 1 reaction · 1 assignee ·
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enhancement
daisybio/HiTSeekR#5 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
daisybio/HiTSeekR#6 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
daisybio/HiTSeekR#7 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
daisybio/HiTSeekR#8 · 1 comment · 0 reactions · 0 assignees ·
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daisybio/easyLiftover#1 · 0 comments · 0 reactions · 1 assignee ·
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daisybio/easyLiftover#2 · 0 comments · 0 reactions · 1 assignee ·
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enhancement
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enhancement
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daisybio/NeEDL#17 · 0 comments · 0 reactions · 0 assignees ·
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daisybio/NeEDL#22 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
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enhancement
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Circadian Analysis Openenhancement
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enhancement
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Picrust2: collapses all gene families to any pathways that they could potentially be involved in Openenhancement
daisybio/namco#12 · 0 comments · 0 reactions · 0 assignees ·
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documentation enhancement
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enhancement
daisybio/namco#24 · 2 comments · 0 reactions · 0 assignees ·
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enhancement
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Downloadable logfile Opendocumentation
daisybio/namco#28 · 3 comments · 0 reactions · 0 assignees ·
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DESeq2 support Open
daisybio/namco#40 · 0 comments · 0 reactions · 0 assignees ·
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enhancement
daisybio/namco#43 · 2 comments · 0 reactions · 2 assignees ·
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stability
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enhancement multi-omics
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enhancement multi-omics
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reproducibility