NKI-GCF XenofilteR issues

NKI-GCF / XenofilteR

Filtering of PDX samples for mouse derived reads

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issues

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Xenofilter for other species (non-human)

#31 dongwankimlab closed 1 month ago
2
XenofilteR is filtering out all the reads

#30 raunimarques closed 1 month ago
1
XeofilteR for other species

#29 aliibarry opened 2 months ago
1
Any update soon?

#28 tizilys closed 1 month ago
1
Effect of reference genome version

#27 smsamin closed 1 year ago
1
MM filters out long deletions?

#26 noranekonobokkusu opened 1 year ago
1
Recommended parameters for 110 bp paired-reads

#25 ZReplicant closed 1 year ago
4
add nm for star

#24 RoelKluin closed 1 year ago
0
Bam file

#23 l-magnificence closed 1 year ago
1
Bam with or without duplicate reads marked

#22 npatel-ah closed 2 years ago
2
Update XenofilteR.R

#21 RoelKluin closed 2 years ago
0
Insertions counted twice (in STAR) + Default MM set to <4

#20 eyalmpeer opened 2 years ago
1
BiocParallel errors. Could not find function "FilterRules"

#19 Cherif-BA closed 2 years ago
2
How to remove human reads from PDX samples aligned to mouse genome ?

#18 akramdi closed 2 years ago
2
invalid class “PhredQuality” object

#17 corticaltone closed 2 years ago
1
'Realloc' could not re-allocate memory

#16 rgescudero closed 3 years ago
2
error

#15 sun8841 closed 3 years ago
0
Total number of filtered reads

#14 wrongbong closed 2 years ago
1
Can XenofilteR be used for single cell RNA seq?

#13 YuliaInn closed 4 years ago
6
Error in getOctD(x, offset, len) : invalid octal digit

#12 YuliaInn closed 4 years ago
4
XenofilteR error fixing --long vectors not supported

#11 sushang-thu closed 4 years ago
2
100% reads filtered out

#10 mbaddoo closed 5 years ago
4
Get mouse & human filtered bams simultaneously

#9 ChelseaCHENX closed 3 years ago
1
bpapply receive data failed

#8 ChelseaCHENX closed 5 years ago
2
long vectors not supported yet

#7 sztup opened 5 years ago
14
EOF marker absent

#6 roskamsh closed 3 years ago
9
Problem to implement and use function "FilterRules"

#5 rekren closed 3 years ago
6
BiocParallel errors

#4 ruska612 closed 3 years ago
4
Mouse-read output option not implemented

#3 JohnMCMa closed 5 years ago
2
The Reads should be filtered?

#2 YingYa closed 3 years ago
1
Edits to XenofilteR 21-01-2016

#1 thomasKuilman closed 8 years ago
0