issues
search
matsengrp
/
phip-flow
A Nextflow pipeline to align, merge, and organize large PhIP-Seq datasets
MIT License
8
stars
5
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
sample_id not passed to aggregate
#74
bkellman
opened
4 days ago
1
Adding support for local singularity and apptainer profiles
#73
afonsoguerra
opened
3 months ago
0
ALIGN:short_read_alignment (10) - ERROR
#72
martinezvbs
opened
3 months ago
0
streamlit phip-viz error on startup
#71
bkellman
opened
4 months ago
0
Low alignment
#70
bkellman
closed
5 months ago
4
patch aggregate workflow
#69
jgallowa07
closed
7 months ago
2
[possible bug] summarize_by_organism cannot find sample table
#68
bkellman
closed
7 months ago
12
[improvement] Examples with summarize_by_organism
#67
bkellman
closed
7 months ago
1
Unexpected behavior during nextflow run
#66
bkellman
closed
9 months ago
3
gzip csv outputs
#65
jgallowa07
closed
1 year ago
0
update exmaple sample tables paths
#64
jgallowa07
closed
1 year ago
0
working optional beer
#63
jgallowa07
closed
1 year ago
3
Add documentation how to contribute.
#62
jgallowa07
closed
1 year ago
0
Fix broken images
#61
jgallowa07
closed
1 year ago
1
Add beer
#60
jgallowa07
closed
1 year ago
5
removed all NB processes and scripts
#59
jgallowa07
closed
1 year ago
0
Deprecate or Remove Negative Binomial workflow
#58
jgallowa07
closed
1 year ago
0
Export `PhIPData` Object from pipeline
#57
jgallowa07
closed
1 year ago
1
BEER Analysis into workflow
#56
jgallowa07
closed
1 year ago
32
Add results columns for max_ebs_hits and mean_ebs_hits
#55
sminot
closed
1 year ago
0
Explicitly set variable types
#54
sminot
closed
1 year ago
0
Fix output stat -- order of operations
#53
sminot
closed
1 year ago
0
Update aggregate organisms
#52
sminot
closed
1 year ago
0
V1.04
#51
jgallowa07
closed
1 year ago
0
phip-flow command error when running merge-counts-stats.py
#50
dbayles
closed
1 year ago
6
Add VirScan code
#49
sminot
closed
2 years ago
1
V1.03
#48
jgallowa07
closed
2 years ago
0
added neg binom fit
#47
jgallowa07
closed
1 year ago
2
V1.01
#46
jgallowa07
closed
2 years ago
0
V1.01
#45
jgallowa07
closed
2 years ago
0
v1.01 -> V1.01
#44
sminot
closed
2 years ago
0
41 bin
#43
jgallowa07
closed
2 years ago
4
parse_config sub-workflow
#42
jgallowa07
closed
1 year ago
0
Integrating "phip-flow" command code directly into bin/
#41
jgallowa07
closed
1 year ago
0
remove integer id requirement for sample and peptide table.
#40
jgallowa07
closed
2 years ago
1
34 merge seq dir fastq req
#39
jgallowa07
closed
2 years ago
0
added simulation example
#38
jgallowa07
closed
2 years ago
0
Replicate Oligo nt Sequence Behavior
#37
jgallowa07
closed
1 year ago
4
Multi-library Manifest
#36
jgallowa07
closed
2 years ago
3
Model fitting subworkflow
#35
jgallowa07
closed
1 year ago
0
Merge seq_dir and fastq_filename
#34
jgallowa07
closed
2 years ago
0
updated alignment config params
#33
jgallowa07
closed
2 years ago
0
Move read, ad peptide length to config
#32
jgallowa07
closed
2 years ago
0
Add an automated test.
#31
jgallowa07
closed
1 year ago
0
Add input checks
#30
jgallowa07
closed
1 year ago
0
batch-specific workflows
#29
jgallowa07
closed
1 year ago
0
Remove automated output of binary
#28
jgallowa07
closed
1 year ago
0
ran example
#27
jgallowa07
closed
2 years ago
0
Change the "file" type cast to "Path"
#26
jgallowa07
closed
2 years ago
0
Potential DSL-2 Refactor
#25
sminot
closed
2 years ago
0
Next