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CGATOxford
/
UMI-tools
Tools for handling Unique Molecular Identifiers in NGS data sets
MIT License
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umi_tools not "extracting" any barcodes, while the same command had worked before
#612
kvn95ss
closed
5 months ago
4
{is} fix read suffix line end
#611
IanSudbery
closed
10 months ago
0
Issue with extraction method, obtaining empty file as an output
#610
PavithraV0223
closed
7 months ago
6
{is} prepare for rsem
#609
IanSudbery
closed
10 months ago
8
Estimate sequencing error rate
#608
phillipeloher
closed
11 months ago
2
prepare-for-rsem no longer works
#607
anoronh4
closed
7 months ago
2
How can use umi-tools for umi present on read1 and in both the end like 5' and 3' end?
#606
unique379r
closed
7 months ago
4
Custom UMI Deduplication
#605
jamesboot
closed
11 months ago
2
doc: fix docs for dedup stats filenames
#604
msto
closed
11 months ago
1
Confused with the output "position" of group function
#603
yinzhuo0322
closed
7 months ago
4
paired-end reads where UMI is located in read 2
#602
silvia1234567890
closed
7 months ago
5
Wrong UMI extracted using Regex
#601
NordinZandhuis
closed
1 year ago
0
Error in installing with conda: solving environment
#600
AmirhosseinQ1
closed
7 months ago
4
Deduplication of UMI on Read2 only
#599
LeoVincenzi
closed
1 year ago
3
Error : dedup' is not a UMI-tools command
#598
mohamedbahru
closed
1 year ago
1
Question about Obtaining Barcode Pattern from Sequencing Data
#597
cheng-xiaoxiaoo
closed
1 year ago
2
question: umi_tools whitelist to recover barcodes in an amplicon sequencing experiment
#596
MGordon09
closed
7 months ago
4
Extra UMI present only in R1 of read pair?
#595
kmshort
closed
1 year ago
1
umi_tools not working
#594
gevro
closed
1 year ago
2
whitelist is not defined error when running umi_tools extract
#593
prmunn
closed
7 months ago
4
Changed yaml.load to yaml.safe_load
#592
IanSudbery
closed
1 year ago
3
Read suffixes removed from single end data
#591
IanSudbery
closed
1 year ago
1
speedup with pigz
#590
wangjiawen2013
closed
7 months ago
2
UMI_tools for C1-STRT scRNAseq data?
#589
auesro
closed
1 year ago
8
UMI-Tools extract feature in Alevin
#588
robingarcia
closed
7 months ago
1
reads limit of fastq file
#587
yuw444
closed
1 year ago
2
Fix lack of help messages in 1.1.4
#586
IanSudbery
closed
1 year ago
2
Help messages not showing in umi_tools 1.1.4
#585
IanSudbery
closed
7 months ago
2
pkg_resources.DistributionNotFound: The 'umi-tools==0.2.3' distribution was not found and is required by the application
#584
ChristianRohde
closed
1 year ago
4
dedup running very slow
#583
YichaoOU
closed
1 year ago
2
Ts recompile dedup umi.c
#582
TomSmithCGAT
closed
1 year ago
0
dedup with `paired` option
#581
YichaoOU
closed
1 year ago
2
bug for handling /1 suffix in single-ended reads
#580
anoronh4
closed
10 months ago
11
reads counts
#579
wangjiawen2013
closed
7 months ago
6
Release with https://github.com/CGATOxford/UMI-tools/pull/577?
#578
akmorrow13
closed
1 year ago
3
Handle --per-contig grouping with no gene tags
#577
akmorrow13
closed
1 year ago
8
check if gene_tag is empty
#576
akmorrow13
closed
1 year ago
1
UMI sequences do not locate in end of read name
#575
dahun73
closed
1 year ago
2
Using umi_tools dedup with bams containing multimappers
#574
kalavattam
closed
1 year ago
3
Total number of times UMI is observed across all positions increases post UMI deduplication—why?
#573
kalavattam
closed
1 year ago
3
Minor confusion regarding help message
#572
kalavattam
closed
6 months ago
1
umi_tools dedup output empty bam and sort: unrecognized option '--no-PG' error
#571
janinelux
closed
1 year ago
19
Handle `--per-contig` grouping with no gene tags
#570
mfansler
closed
1 year ago
2
question about how to prepare bam
#569
anoronh4
closed
1 year ago
1
group with `--per-contig` unnecessarily requires gene tags
#568
mfansler
closed
1 year ago
5
Inconsistent result of no reads from the same coordinate in UMI-tools dedup
#567
camelest
closed
1 year ago
1
ops
#566
mariafrancesca21
closed
1 year ago
0
Does concatenating fastq files cause any issues
#565
Joseph-Waldron
closed
1 year ago
2
UMI reads are more than Fastq reads
#564
zhangpicb
closed
1 year ago
4
Python 3.11 support?
#563
sjaenick
closed
1 year ago
11
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