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o-william-white
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skim2mito
A snakemake pipeline for the batch assembly, annotation, and phylogenetic analysis of mitochondrial genomes from genome skims
MIT License
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Go fetch api
#40
o-william-white
closed
14 hours ago
0
Update multiqc.yaml
#39
bwprice
opened
3 weeks ago
0
Update minimap.smk
#38
bwprice
opened
3 weeks ago
0
Update getorganelle.smk
#37
bwprice
opened
3 weeks ago
0
Update fastqc_qc.smk
#36
bwprice
opened
3 weeks ago
0
Update fastp.smk
#35
bwprice
opened
3 weeks ago
0
Update go_fetch.py
#34
SchistoDan
opened
1 month ago
0
Pecholleyn checkpoint/checkpoint fix
#33
o-william-white
closed
2 months ago
0
Checkpoint fix
#32
o-william-white
closed
2 months ago
11
Include rulegraph.svg and fix go_fetch to act as input for getorganelle
#31
o-william-white
closed
3 months ago
0
check
#30
DThuo
closed
3 months ago
2
A DAG figure of the pipeline
#29
rvosa
closed
3 months ago
1
renaming the top-level conda environment
#28
rvosa
closed
2 months ago
5
Readme updates and Conda only workflow
#27
douglowe
closed
4 months ago
0
Conda only environments - remove singularity dependency
#26
douglowe
closed
4 months ago
5
Avoiding singularity container
#25
o-william-white
closed
3 months ago
1
README.md updates - add singularity install, put example command on single line
#24
elichad
closed
4 months ago
3
How to format outputs for ENA and bold?
#23
dickgroenenberg
opened
4 months ago
2
Better annotation of cox1 genes, using a custom bold or other database.
#22
dickgroenenberg
opened
4 months ago
0
How to generate input files effectively for pipeline (not necessarily part of the pipeline).
#21
douglowe
opened
4 months ago
0
add .gitignore
#20
elichad
closed
4 months ago
1
Multiqc output with a better summary of output files. Which samples have worked or failed?
#19
dickgroenenberg
closed
2 months ago
1
Genome skim BGE hackathon issues
#18
o-william-white
opened
4 months ago
0
Fastqc error
#17
o-william-white
closed
3 months ago
0
fastp trimming
#16
bwprice
closed
5 months ago
1
readme barcode only
#15
bwprice
closed
5 months ago
1
forking into bge-bioscan
#14
rvosa
opened
7 months ago
0
project structure and workflowhub compliance
#13
rvosa
closed
3 months ago
1
Singularitiy does not recognise files in a different root directory
#12
o-william-white
closed
3 months ago
1
continue pipeline in case of exception
#11
dickgroenenberg
closed
11 months ago
0
Add option to activate deduplication with fastp
#10
martinstervander
closed
9 months ago
1
Multiple read file pairs per sample
#9
martinstervander
opened
1 year ago
0
Which genbank database is needed?
#8
rvosa
closed
9 months ago
5
commenting out unportable path
#7
rvosa
closed
1 year ago
0
go_fetch handling
#6
rvosa
closed
1 year ago
0
docs refer to bees, probably leftover snippet?
#5
rvosa
closed
1 year ago
1
Stuck on downloading the vole data
#4
rvosa
closed
1 year ago
5
Update README.md
#3
rvosa
closed
1 year ago
0
Update README.md
#2
rvosa
closed
1 year ago
0
Updated pipeline to include ribosomal sequence assembly and annoation.
#1
o-william-white
closed
1 year ago
0