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mourisl
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T1K
T1K is a versatile methods to genotype highly polymorphic genes (e.g. KIR, HLA) with bulk or single-cell RNA-seq, WGS or WES data.
MIT License
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Multiple paired-end fastq files for the same sample
#35
Bondada20
opened
2 days ago
2
Found 0 read fragments when assigning stage
#34
punching-samuel
closed
2 weeks ago
4
How exons should be specified in the reference FASTA file?
#33
anya-pavlova
opened
1 month ago
1
Add the option in AddGeneCoord.pl to map GTF gene name to IMGT gene n…
#32
mourisl
closed
1 month ago
0
Ipdkir 2.13.0
#31
mourisl
closed
1 month ago
0
AddGeneCoord.pl fails to populate HLA-HFE coordinates
#30
dmiller15
closed
1 month ago
3
output interpretation - secondary alleles
#29
YuliuG
closed
2 months ago
2
Problems with copynumber analysis
#28
jshdydh123
closed
2 months ago
4
question about post analysis
#27
ijuric
closed
3 months ago
12
Bam
#26
p-levy
closed
5 months ago
1
readout of the output
#25
nzhun
closed
5 months ago
4
Problems with 3DP1 and 2DL4
#24
alicekiki
opened
7 months ago
21
T1K for PGx
#23
nbiesot
opened
8 months ago
7
Convert KIR results to PLINK format
#22
alicekiki
opened
8 months ago
2
multiple alleles and rna expression quantification
#21
lucy-tian
closed
8 months ago
14
Docker/Singularity container version update on quay.io
#20
SergeWielhouwer
closed
8 months ago
2
RNA expression quantification quality for DRB3/4/5
#19
lucy-tian
closed
8 months ago
2
Can FPK be converted to FPKM?
#18
lucy-tian
closed
9 months ago
2
Can HLA output file directly used in HATK ?
#17
alicekiki
closed
7 months ago
1
Keep partial alleles if their exons structure is complete
#16
mourisl
closed
9 months ago
0
Homozygous alleles vs missing alleles
#15
ck1236
closed
4 months ago
3
How to output a bam file
#14
Ritabear
closed
12 months ago
3
the bundled example
#13
droeatumn
closed
12 months ago
1
Ratio is the log-ratio of the likelihood between the most likely copy number and the second likely copy number. I'm still trying to optimize t1k-copynumber.py, so please interpret its result with caution.
#12
fernandogs97BR
opened
1 year ago
6
How to run post analysis steps such as copynumber and novel SNP detection?
#11
yingchen69
closed
7 months ago
8
Is an already compiled database for HLA available ?
#10
rasmusmarvig
closed
1 year ago
1
Question - WES/WGS data
#9
Pharmacogenetecist
closed
1 year ago
33
Problems with KIR2DL5A/B
#8
fernandogs97BR
opened
1 year ago
15
Long Processing Time
#7
ShawnSimp
closed
7 months ago
4
Support for cram files?
#6
moutsian
opened
1 year ago
6
No multi-gene mapper
#5
Ritabear
closed
1 year ago
6
Providing candidate fq files as input
#4
moutsian
closed
1 year ago
2
Fix several function return issues.
#3
mourisl
closed
1 year ago
0
FASTQ-Extractor step failes
#2
Akazhiel
closed
1 year ago
5
Larger initial SimpleVector to reduce realloc calls
#1
lh3
closed
2 years ago
1