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sdparekh
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zUMIs
zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
GNU General Public License v3.0
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What should the file content of "barcode_file: null" in line 64 of file zUMIs.yaml be?
#355
WXY-Belief
closed
1 year ago
2
Error in eval(bysub, parent.frame(), parent.frame()) : object 'XC' not found Calls
#354
PeggySze
closed
1 year ago
4
Question about multimapping reads
#353
MartaBenegas
closed
1 year ago
5
An error was encountered while running zUMIs(v2.9.7d)
#352
shangyf-stu
closed
1 year ago
7
Smart-seq-3 data subsets systematically fail after counting due to chunking
#351
Romain-B
closed
1 year ago
1
Parameters related to Multimapping genes count
#350
zmf0621
closed
1 year ago
1
Pipeline QC metrics
#349
royfrancis
closed
1 year ago
2
Rscript header for merge_demulitplexed_fastq.R
#348
idot
opened
1 year ago
0
Can skip filtering and restart a failed run from the mapping stage?
#347
Ni-Ar
closed
1 year ago
5
Demultiplex option in YAML config Rshiny application
#346
Ni-Ar
closed
1 year ago
2
samtools sort: couldn't allocate memory for bam_mem
#345
royfrancis
closed
1 year ago
6
some warning report and question about barcodes
#344
hulilalia
closed
1 year ago
6
More info about the conda env and docker image
#343
royfrancis
closed
1 year ago
2
Does zUMIs remove PCR duplicates from the bam files?
#342
pschinke
closed
1 year ago
7
sjdbOverhang Error when trying to run zUMIs
#341
stkgo
closed
1 year ago
5
Using singularity images as executable
#340
royfrancis
closed
1 year ago
4
STAR version error
#339
royfrancis
closed
1 year ago
1
Unable to run zUMIs - SmartSeq3xpress
#338
KoenDeserranno
closed
1 year ago
5
Error with yaml file
#337
MartaBenegas
closed
1 year ago
3
samtools view: error closing standard output: -1
#336
Liripo
closed
2 years ago
2
zUMIs-env no longer in download from GitHub
#335
katharinebca
closed
2 years ago
3
samtools empty query name
#334
brainfo
closed
2 years ago
1
Error in uik(bccount$cellindex, bccount$cs/1000) : Method is not applicable for such a small vector. Please give at least a 5 numbers vector
#333
carmensandoval
closed
2 years ago
3
BUG: conda activate, conda-unpack, RScript not found.
#332
carmensandoval
closed
2 years ago
2
wrong version check
#331
brainfo
closed
2 years ago
2
zUMIs.YAML.error.log: All files "NULL"
#330
carmensandoval
closed
2 years ago
9
expected_barcodes file with dual indices
#329
carmensandoval
closed
2 years ago
2
I want to count how many alignments fall into exonic, intronic and intergenic regions.
#328
pandh0607
closed
2 years ago
3
Error in dyn.load(file, DLLpath = DLLpath, ...) :
#327
brain-discourse
opened
2 years ago
0
Invalid size argument during downsampling
#326
ScottNortonPhD
closed
1 year ago
1
BUG: unable to run zUMI's
#325
LJK1991
closed
2 years ago
4
Rerun from mapping step using filtered.tagged.unmapped.bam?
#324
Anacristina0914
closed
2 years ago
5
Extract UMI-containing reads from bam files
#323
MengjunWu
closed
2 years ago
4
FeatureCount output
#322
Shinichiro03
closed
2 years ago
6
R library cannot detect
#321
lingnanyuan
closed
2 years ago
7
Error in alldt[[i]][[2]] : subscript out of bounds Calls: bindList
#320
parichitran
closed
2 years ago
1
zUMI counts multi-mappers, is there an option to only allow uniquely mapped reads counted?
#319
MengjunWu
closed
2 years ago
4
Total alignments : 0
#318
Chuang1118
closed
2 years ago
3
Low exon or intron+exon counts and genes in STARsolo compared to counts and genes found in zUMIs
#317
EmeTexe
closed
2 years ago
1
Error in mclapply
#316
mehdipourrostami
closed
2 years ago
7
Met Execution problems during running the example data.
#315
RFLiu2021
closed
2 years ago
4
EXITING because of fatal error: buffer size for SJ output is too small Solution: increase input parameter --limitOutSJcollapsed
#314
parichitran
closed
2 years ago
0
Encountering unpaired read upon analyzing SmartSeq2 dataset in NCBI SRA
#313
kbattenb
closed
2 years ago
4
pigz: skipping: /media/Project1/00_Fastq/finaltest/MergedRead_2.fastq.gz: corrupted -- invalid deflate data (invalid block type) pigz: abort: internal threads error
#312
parichitran
closed
2 years ago
3
zUMIs "inex" all read counts and downsampled read counts the same
#311
seifudd
closed
2 years ago
4
ERROR! Fastq files are not in the same order. Make sure to provide reads in the same order
#310
parichitran
closed
2 years ago
7
tag a release
#309
notestaff
closed
2 years ago
1
"43 barcodes detected" in test data"
#308
parichitran
closed
2 years ago
1
BUG: stuck at 'Descriptive statistics...'
#307
pchiang5
closed
2 years ago
1
Getting error after the mapping step
#306
luckysardar
closed
2 years ago
4
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