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sanger-tol
/
ascc
A Nextflow DSL2 pipeline for the identification of cobiont and contaminating sequences using fasta and pacbio data.
https://pipelines.tol.sanger.ac.uk/ascc
MIT License
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Blast can sometimes fail due to the provided taxon id
#49
DLBPointon
opened
5 hours ago
0
Many additions
#48
DLBPointon
opened
2 months ago
2
Update README.md
#47
DLBPointon
closed
2 months ago
1
[EXTENSION] Add in the current post-ASCC scripts as a flagged option
#46
DLBPointon
opened
3 months ago
0
README and docs/usage.md refer to FASTQC, not contamination screening of a genome assembly
#45
talioto
opened
3 months ago
1
V1.1.0 - [REFACTOR] - Major refactor
#44
DLBPointon
opened
3 months ago
0
Synteny Command not always working
#43
DLBPointon
closed
5 months ago
1
corrected bin/chunk_assembly_for_vecscreen.py
#42
yumisims
closed
6 months ago
1
Dp24 vecscreen2 updates
#41
DLBPointon
closed
7 months ago
3
Kmer count + Dimensionality reduction
#40
weaglesBio
closed
3 months ago
2
VecScreen
#39
eeaunin
closed
7 months ago
2
Dp24 organellar
#38
DLBPointon
closed
7 months ago
3
read depth coverage workflow
#37
yumisims
closed
7 months ago
2
read average coverage workflow
#36
yumisims
closed
8 months ago
2
Dp24 organellar
#35
DLBPointon
closed
8 months ago
8
Dp24 barcodes
#34
DLBPointon
closed
8 months ago
2
Release 1.1 - So many spelling and grammatical mistakes
#33
DLBPointon
closed
8 months ago
1
add vecscreen test set on ci, checkin coverage related scripts, updat…
#32
yumisims
closed
8 months ago
2
Githubtesting1
#31
yumisims
closed
8 months ago
1
bedTools.py refactoring
#30
yumisims
closed
4 months ago
1
completed fcsgx workflow
#29
yumisims
closed
8 months ago
2
Dp24 gc content
#28
DLBPointon
closed
8 months ago
4
add fcsadaptor stuff
#27
yumisims
closed
9 months ago
1
Test Integration
#26
DLBPointon
closed
9 months ago
0
Dp24 modules
#25
DLBPointon
closed
9 months ago
2
Update test.yaml
#24
yumisims
closed
9 months ago
0
Layer 1 - Diamond Blastx
#23
DLBPointon
closed
10 months ago
0
Kraken
#22
DLBPointon
closed
11 months ago
0
Merge pull request #19 from sanger-tol/dev
#21
DLBPointon
closed
11 months ago
0
Merge pull request #19 from sanger-tol/dev
#20
DLBPointon
closed
11 months ago
0
Merge pull request #18 from sanger-tol/tiara
#19
DLBPointon
closed
11 months ago
0
Tiara
#18
DLBPointon
closed
11 months ago
0
Layer 3 - Adaptor Contam Report
#17
DLBPointon
closed
2 months ago
0
Layer 3 - CSV table of average per Phylum
#16
DLBPointon
opened
12 months ago
0
Layer 3 - Convert to BlobToolKit dataset
#15
DLBPointon
closed
2 months ago
1
Layer 3 - CSV of classification results
#14
DLBPointon
closed
2 months ago
0
Layer 2 - PacBio barcode screen
#13
DLBPointon
closed
7 months ago
0
Layer 2 - Tiara
#12
DLBPointon
closed
12 months ago
0
Layer 2 - VecScreen
#11
DLBPointon
closed
4 months ago
1
Layer 2 - FCS-adaptor
#10
DLBPointon
closed
7 months ago
0
Layer 2 - FCS-GX
#9
DLBPointon
closed
7 months ago
0
v1.2.0 - CobiontID
#8
DLBPointon
opened
12 months ago
2
Layer 2 - Kmer Counting + dim reduction
#7
DLBPointon
closed
3 months ago
2
Layer 2 - GC and Coverage Calc
#6
DLBPointon
closed
7 months ago
1
Layer 2 - nr and UniProt Diamond BLASTX
#5
DLBPointon
closed
7 months ago
1
Layer 1 - Tiara
#4
DLBPointon
closed
7 months ago
0
Layer 1 - Kraken 2
#3
DLBPointon
closed
11 months ago
1
Layer 1 - BUSCO-based BTK
#2
DLBPointon
opened
12 months ago
2
Layer 1 - nt BLAST
#1
DLBPointon
closed
7 months ago
0