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Hoohm
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dropSeqPipe
A SingleCell RNASeq pre-processing snakemake workflow
Creative Commons Attribution Share Alike 4.0 International
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violin_plot
#71
manarai
closed
5 years ago
8
Error in set in up the pipe and running it
#70
manarai
closed
5 years ago
7
Error in rule MergeBamAlignment - Read from mapped file is missing in reference fastq file!
#69
dylkot
closed
4 years ago
7
errors in CreateSequenceDictionary and ConvertToRefFlat only when run through snakemake
#68
dylkot
closed
5 years ago
14
Config.yaml error DropSeqPipe v0.4
#67
Hofphi
closed
5 years ago
9
Create_star_index failing
#66
Hofphi
closed
5 years ago
6
R package problem, plotting error
#65
Hofphi
closed
5 years ago
19
Consider a minimal repeated tutorial
#64
Puriney
closed
5 years ago
2
Problem in running generate_meta_.smk in 3.2 version
#63
Jun-Lizst
closed
5 years ago
3
I can not find the jar directory! help!!!
#62
Jun-Lizst
closed
5 years ago
4
I have issue on STAR running part. help!!!
#61
Jun-Lizst
closed
5 years ago
2
Do these two parameter in config.yaml file needed to fill?
#60
Jun-Lizst
closed
5 years ago
0
Feature/stamp stats
#59
seb-mueller
closed
5 years ago
0
Fix plot rna metrics.r
#58
cgirardot
closed
5 years ago
0
Hotfix/doc add plots
#57
seb-mueller
closed
5 years ago
2
Fix plot rna metrics.r & extract_expression_single.smk
#56
cgirardot
closed
5 years ago
4
Hotfix/doc add plots
#55
seb-mueller
closed
5 years ago
3
violin plot execution fails
#54
cgirardot
closed
4 years ago
2
Changing UMI-edit-distance has seemingly no effect
#53
seb-mueller
closed
5 years ago
1
The merge_single_counts.R step takes 60GB memory each and runs now for >30h.
#52
grst
closed
5 years ago
2
migrate wiki to mkdocs+travis+gh-pages
#51
grst
closed
5 years ago
3
Mkdocs+travis
#50
grst
closed
5 years ago
1
'repair' rule: too many threads declared?
#49
grst
closed
5 years ago
3
Exception in thread "main" picard.PicardException: In paired mode, read name 1 does not match read name 2
#48
Hofphi
closed
5 years ago
4
R figure plotting error
#47
P4sm
closed
6 years ago
2
adding cutadapt rule in test data config to get it runable
#46
seb-mueller
closed
5 years ago
3
Modern August 2018 conda - issues
#45
colindaven
closed
6 years ago
1
Error on split_species rule for shipped test data
#44
seb-mueller
closed
5 years ago
5
Human mitochondria weren't recognized due to capitalization
#43
seb-mueller
closed
6 years ago
1
SureCell / ddSeq support
#42
AskPascal
opened
6 years ago
7
Conda dropseq
#41
cgirardot
closed
6 years ago
18
Pipeline stops when it start making R plots
#40
terooatt
closed
6 years ago
2
Creating "violine", "count vs gene" and "count vs UMI" plots plus export seurat objects
#39
seb-mueller
closed
6 years ago
8
fix issue #37
#38
seb-mueller
closed
6 years ago
0
Number of Genes/Transcripts wrong in species_plots
#37
seb-mueller
closed
6 years ago
0
Question: should this be fastx, no fatsx ?
#36
colindaven
closed
6 years ago
3
Cell barcode too short error: trimming ?
#35
colindaven
closed
5 years ago
2
Error in creating annotation.refFlat
#34
KaiWu-Umich
closed
5 years ago
2
Confusions about the 5' smart adapter and Trimmomatic adapter files
#33
ysbioinfo
closed
5 years ago
4
dropSeqPipe Installation Error
#32
megara23
closed
6 years ago
10
Travis integration
#31
Hoohm
closed
6 years ago
0
Specification for GTF file
#30
dylkot
opened
6 years ago
11
Problem on macosx with cut
#29
Hoohm
closed
6 years ago
1
Rerunning "extract" step
#28
ravipatel4
closed
6 years ago
7
high % mixed species?
#27
olechnwin
closed
6 years ago
3
questions on wiki plots
#26
olechnwin
closed
5 years ago
3
advice on knee plot
#25
olechnwin
closed
5 years ago
3
Error opening file: hg19_mm10_transgenes.rRNA.intervals
#24
olechnwin
closed
6 years ago
7
InputFunctionException in line 5 /rules/map.smk
#23
olechnwin
closed
6 years ago
3
TagBamWithReadSequenceExtended: ArrayIndexOutOfBoundsException: 10
#22
jenzopr
closed
6 years ago
5
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