 Thomas
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15bce449b8
new bgz writer remove BGZIP crate cause of error writing big bgzip files
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1 dag sedan |
|
Thomas
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871e6e4129
scan
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1 dag sedan |
|
Thomas
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49c56654c3
scan
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1 dag sedan |
|
Thomas
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09c26b3b2c
scan
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1 dag sedan |
|
Thomas
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d6250eeae7
coral
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4 dagar sedan |
|
Thomas
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37eef933cf
better scan
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4 dagar sedan |
|
Thomas
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6d4dfaf4ad
better scan
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4 dagar sedan |
|
Thomas
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9681be650f
better scan
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4 dagar sedan |
|
Thomas
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9183f25a61
better scan
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4 dagar sedan |
|
Thomas
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70dc1304d2
better scan
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4 dagar sedan |
|
Thomas
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4848af2a3a
better gatk
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4 dagar sedan |
|
Thomas
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dce4a111cc
nanomonsv -> mediumq; GATK ok
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5 dagar sedan |
|
Thomas
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9ddb488f87
robuster epilog parsing
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6 dagar sedan |
|
Thomas
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22d9b9f29d
savana_mem for slurm max mem
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6 dagar sedan |
|
Thomas
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f216c34dce
reduced clairS threads; added slurm_max_par default: 10; use of run! and run_many! in bam import
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1 vecka sedan |
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Thomas
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27489a85bc
config;panel_bam
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1 vecka sedan |
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Thomas
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a631c652db
Infos.freq_maf()
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2 veckor sedan |
|
Thomas
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9e3c086a44
Infos fields for dbSNP
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2 veckor sedan |
|
Thomas
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fe19eb6036
scan remove chrM
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1 månad sedan |
|
Thomas
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caee96be9e
scan remove chrM
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1 månad sedan |
|
Thomas
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96474698f0
scan remove chrM
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1 månad sedan |
|
Thomas
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841fa84fa2
unactivate reheader
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1 månad sedan |
|
Thomas
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947fe471aa
save_into_lifted for Variants
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2 månader sedan |
|
Thomas
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fd1dc2c8df
sm tags modif
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2 månader sedan |
|
Thomas
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63632f0b37
keep ancient mtime when modifying BAM header for adding SM tag in Mutect2
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2 månader sedan |
|
Thomas
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0ee77e1f7c
adding SM tag on BAM header during impory
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2 månader sedan |
|
Thomas
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83f7501240
bug: GATK mutect2 use SM tag but no tag if no barcode by dorado. solution: add sm tag and reheader
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2 månader sedan |
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Thomas
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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/
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2 månader sedan |
|
Thomas
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069f6f8b38
Added GATK mutect2
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2 månader sedan |
|
Thomas
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73775d23a0
clean
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2 månader sedan |
