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caleblareau
/
mgatk
mgatk: mitochondrial genome analysis toolkit
http://caleblareau.github.io/mgatk
MIT License
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“Error in checkGrep(grep(".A.txt", files))
#95
Cesco16
opened
1 week ago
1
Config file (snake.scatter.yaml) not present
#94
tybottorff
opened
1 month ago
0
Error in checkGrep(grep(".A.txt", files)) and Attribute error in 'pulp'
#93
davhg96
opened
1 month ago
1
Missing output files
#92
scontcast
closed
3 weeks ago
0
process mtDNA genotyping using scATAC-seq data from 10x multiome
#91
pxh251
opened
3 months ago
6
Improper folder specification; file missing / extra file present. See documentation
#90
isadeghi87
opened
3 months ago
2
adds matplotlib to req; replaces deprectated np.float
#89
TomSmithCGAT
opened
3 months ago
1
Conda package for mgatk and improving error messages
#88
TomSmithCGAT
opened
3 months ago
0
Replace `np.float` with `np.float64` to address deprecation
#87
erguntiryaki
opened
4 months ago
0
sumstatsBP_overlap.py failed to handle paired-end reads with unmatched length in the overlapped region.
#86
Qirong-Lin
opened
5 months ago
3
sumstatsBP_overlap.py failed to handle paired-end reads with unequal R1 and R2 lengths
#85
Qirong-Lin
opened
5 months ago
0
YAML dump errors
#84
ollieeknight
closed
5 months ago
9
cannot create regular file
#83
FionaMoon
closed
6 months ago
2
Too many opened files
#81
MagpiePKU
closed
9 months ago
1
importMito error
#80
FionaMoon
closed
9 months ago
1
What is per-position coverage?
#79
FionaMoon
closed
10 months ago
3
Apply mgatk to scRNA-seq data
#78
FionaMoon
closed
10 months ago
0
mgatk-del-find fails in visualisation step
#77
grasshoffm
closed
5 months ago
4
Missing output files when running mgatk with test data
#76
smzt
closed
11 months ago
1
getBarcode in chunk_barcoded_bam.py always returns barcode (and not umi)
#75
yaniv-el
closed
11 months ago
5
Update chunk_barcoded_bam.py
#74
ruochiz
closed
1 year ago
0
Possible improvement on chunk_barcoded_bam.py
#73
ruochiz
closed
1 year ago
2
Samtools index error
#72
Hofphi
closed
1 year ago
6
No heteroplasmic mutations
#71
VittoriaDBocchi
closed
1 year ago
2
missing output files
#70
WeiWei060512
opened
1 year ago
4
input cell number does not equal to output cell number
#69
TuoCai2000
closed
1 year ago
8
test_cli.py uses removed `md5` module
#68
rekado
closed
11 months ago
1
missing output files
#67
gddhouse
closed
1 year ago
2
Cannot open workflow vignette
#66
Suhoja
closed
1 year ago
2
`mgatk bcall` has trouble running
#65
mrland99
closed
1 year ago
6
mgatk-del-find won't run
#64
mrland99
closed
1 year ago
3
mgatk tenx mode missing depth and sparse_matrices files
#63
triciapark
opened
1 year ago
4
No cell names present in matrix
#62
dy-lin
closed
1 year ago
1
Error about Missing output files
#61
ttab963
opened
1 year ago
3
Improper folder specification
#60
dy-lin
closed
1 year ago
19
Missing files for mgatk tenx
#59
dy-lin
closed
1 year ago
4
Speed up bam splitting for bcall
#58
AntonJMLarsson
closed
2 years ago
2
multiple bam files with call mode
#57
rtyags
closed
2 years ago
1
Error run mgatk
#56
tianchen2019
closed
2 years ago
6
multiple samples
#55
chrismahony
closed
2 years ago
1
correctly specify reference genome or .fasta file
#54
chrismahony
closed
2 years ago
1
Missing files in output final folder: *.variant_stats.tsv.gz *.cell_heteroplasmic_df.tsv.gz *.vmr_strand_plot.png
#53
nmalwinka
closed
2 years ago
2
Check does not work for Tenx input parameters.
#52
grasshoffm
closed
2 years ago
4
Using Mgatk for non mitochondrial sequences
#51
suneetz
closed
2 years ago
1
checking dependencies...
#50
kieraaleee
closed
2 years ago
15
NA
#49
kieraaleee
closed
2 years ago
0
mgatk does not export cell_heteroplasmic_df.tsv.gz
#48
showteeth
closed
2 years ago
3
Integrating multiple data
#47
dawe
closed
2 years ago
2
Improper folder specification
#46
dawe
closed
2 years ago
5
Python unicode error
#45
ollieeknight
closed
2 years ago
5
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