greenelab/GCB535

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Materials for GCB535 at Penn.

Stars: 21
Forks: 8
Open beginner issues: 0
Indexed issues: 35

Dominant language: Jupyter Notebook
License: BSD-3-Clause
Last GitHub push: Apr 19, 2019
Latest indexed: Sep 17, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: No beginner labels indexed
PR merge metrics: No merged PRs in 30d

Open All

35 open issues indexed

Motif 2: Is the in class/assignment too long? Open

administrative documentation

greenelab/GCB535#84 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Potential Cell Imaging/CellProfiler Week? Open

administrative question

greenelab/GCB535#124 · 3 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Terminal - Jupyter Open

question

greenelab/GCB535#141 · 6 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Create R Kernel called `R (CoCalc)` Open

code documentation

greenelab/GCB535#146 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Create Python Kernel called `Python 2 (CoCalc)` Open

code documentation

greenelab/GCB535#147 · 1 comment · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Add Compute Environment Packages Here Open

administrative code enhancement

greenelab/GCB535#155 · 18 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Student's Computational Environment Open

administrative question

greenelab/GCB535#161 · 8 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Remake Databases assignment Open

administrative documentation enhancement

greenelab/GCB535#165 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Check JASPAR `Matrix Align` is working Open

bug code

greenelab/GCB535#169 · 2 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Chip-Seq I: bedtools genomecov killed Open

administrative bug documentation

greenelab/GCB535#176 · 2 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
sort command with large bed file (ENCODE-I) Open

administrative code documentation MISSION CRITICAL

greenelab/GCB535#179 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 17, 2026
ENCODE I - Data Files Folder Open

administrative code MISSION CRITICAL

greenelab/GCB535#181 · 2 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
for R - I: +10 Hufflepuff Points Open

code documentation

greenelab/GCB535#183 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Update ML discussion section for Day 5 Open

documentation

greenelab/GCB535#187 · 2 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
RNA-Seq "Overview" / Preparation document Open

greenelab/GCB535#195 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
BrainArray Custom CDF added to gene expression module Open

greenelab/GCB535#197 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
ML: More types of classifiers Open

greenelab/GCB535#200 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
ML: Explain datasets Open

greenelab/GCB535#201 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
ML Code confusing Open

greenelab/GCB535#202 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Prelab Variation I: broken link Open

greenelab/GCB535#206 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 17, 2026
Databases: Check numbering of problems (Q5 is listed twice?) Open

greenelab/GCB535#210 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Databases Q8: clarify that it's length of mature mRNA transcript without introns Open

documentation

greenelab/GCB535#211 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Make a "quick fix" doc for common errors (hints/tips for us) for each module Open

greenelab/GCB535#215 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
UNIX-II HW: note that curl will not follow redirect on file Open

greenelab/GCB535#216 · 2 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Motif-III Homer analysis: different users can get very different answers Open

greenelab/GCB535#218 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Motif I HW Answer Updates Open

greenelab/GCB535#219 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Change HW number from 13 to 7 (Alignment) - FASTA file Open

greenelab/GCB535#220 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Broad issue: "Have students think more" Open

greenelab/GCB535#222 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 17, 2026
12_ENCODE: fix mark names to match referenced papers Open

greenelab/GCB535#223 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
12_ENCODE_prelab: get .pdf of papers on canvas or downloadable Open

greenelab/GCB535#224 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
12_ENCODE-II: clarity on files to select Open

greenelab/GCB535#225 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Gene Expression III: listing "top 10 genes" and top probes Open

greenelab/GCB535#229 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Explicitly state that we want work for prelabs done IN The notebook we give them Open

greenelab/GCB535#230 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026
Depreciated code: sklearn.cross_validation Open

greenelab/GCB535#231 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 17, 2026
scRNA-Seq: Set kernel to "R (R-project)" not "R (sagemath)" Open

greenelab/GCB535#232 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 17, 2026

greenelab/GCB535

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