 Thomas
|
15bce449b8
new bgz writer remove BGZIP crate cause of error writing big bgzip files
|
vor 1 Tag |
|
Thomas
|
871e6e4129
scan
|
vor 1 Tag |
|
Thomas
|
49c56654c3
scan
|
vor 1 Tag |
|
Thomas
|
09c26b3b2c
scan
|
vor 1 Tag |
|
Thomas
|
d6250eeae7
coral
|
vor 4 Tagen |
|
Thomas
|
37eef933cf
better scan
|
vor 4 Tagen |
|
Thomas
|
6d4dfaf4ad
better scan
|
vor 4 Tagen |
|
Thomas
|
9681be650f
better scan
|
vor 4 Tagen |
|
Thomas
|
9183f25a61
better scan
|
vor 4 Tagen |
|
Thomas
|
70dc1304d2
better scan
|
vor 4 Tagen |
|
Thomas
|
4848af2a3a
better gatk
|
vor 4 Tagen |
|
Thomas
|
dce4a111cc
nanomonsv -> mediumq; GATK ok
|
vor 5 Tagen |
|
Thomas
|
9ddb488f87
robuster epilog parsing
|
vor 6 Tagen |
|
Thomas
|
22d9b9f29d
savana_mem for slurm max mem
|
vor 6 Tagen |
|
Thomas
|
f216c34dce
reduced clairS threads; added slurm_max_par default: 10; use of run! and run_many! in bam import
|
vor 1 Woche |
|
Thomas
|
27489a85bc
config;panel_bam
|
vor 1 Woche |
|
Thomas
|
a631c652db
Infos.freq_maf()
|
vor 2 Wochen |
|
Thomas
|
9e3c086a44
Infos fields for dbSNP
|
vor 2 Wochen |
|
Thomas
|
fe19eb6036
scan remove chrM
|
vor 1 Monat |
|
Thomas
|
caee96be9e
scan remove chrM
|
vor 1 Monat |
|
Thomas
|
96474698f0
scan remove chrM
|
vor 1 Monat |
|
Thomas
|
841fa84fa2
unactivate reheader
|
vor 1 Monat |
|
Thomas
|
947fe471aa
save_into_lifted for Variants
|
vor 2 Monaten |
|
Thomas
|
fd1dc2c8df
sm tags modif
|
vor 2 Monaten |
|
Thomas
|
63632f0b37
keep ancient mtime when modifying BAM header for adding SM tag in Mutect2
|
vor 2 Monaten |
|
Thomas
|
0ee77e1f7c
adding SM tag on BAM header during impory
|
vor 2 Monaten |
|
Thomas
|
83f7501240
bug: GATK mutect2 use SM tag but no tag if no barcode by dorado. solution: add sm tag and reheader
|
vor 2 Monaten |
|
Thomas
|
4690b66eea
bug: GATK mutect2 SM tag in normal bam not corresponding to sample_name in CMD line. solution: parse SM tag and use it as sample_name. caveat: no verification vbut as long names are generic and attributed by ssystem ok/
|
vor 2 Monaten |
|
Thomas
|
069f6f8b38
Added GATK mutect2
|
vor 2 Monaten |
|
Thomas
|
73775d23a0
clean
|
vor 2 Monaten |
