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pachterlab
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kb_python
A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing
https://www.kallistobus.tools/
BSD 2-Clause "Simplified" License
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Barcode length of zero for custom technology strings
#258
mckellardw
closed
2 weeks ago
2
Running kb_python for Smart-seq3 data where index files have not been provided.
#257
axelalmet
closed
3 weeks ago
4
Fatal error LNK 1181 when trying to install kb-python on Windows 10 system
#256
caj005
opened
1 month ago
1
kb count long run time (run seems stuck)
#255
dsb66
closed
1 month ago
2
Whitelist for SMARTSEQ2 technology
#254
dawe
closed
1 month ago
6
Syntax for 3-reads, paired end technology?
#253
dawe
closed
1 month ago
3
kb-python for MARS-seq
#252
sam-shariati
closed
2 weeks ago
2
Kb count command stuck on bustools count step
#251
gauravgadhvi
closed
1 month ago
5
Issue obtaining unaligned reads
#250
DanLesman
closed
1 month ago
3
Changed barcodes from the kb-python count
#249
Alvis-Jiang
closed
2 months ago
2
Usage of f1 and f2 parameters in kb ref and count
#248
NikTuzov
closed
2 months ago
2
No reads pseudoaligned in 10XV1 chemistry
#247
XiaoMa55555
closed
3 weeks ago
6
Naive collapsing of UMIs in SS3xpress data?
#246
biobenkj
closed
2 months ago
6
kb ref can't handle blanks in path arguments
#245
NikTuzov
closed
2 months ago
2
kb count - joint vs individual sample processing for RNA velocity analysis
#244
NikTuzov
closed
2 months ago
2
Running kb count with a single FASTQ file
#243
NikTuzov
closed
3 months ago
4
Crosspost from kallistobustools: kb count error with CSP reads
#242
kaijli
closed
2 months ago
21
kb-python processing significantly less reads
#241
Celine-Serry
closed
3 months ago
6
How to run RNA velocity analysis (La Manno) on BAM files
#240
NikTuzov
closed
4 months ago
4
Containerized kb can choose the wrong binary
#239
gennadyFauna
closed
4 months ago
1
--umi-gene no longer supported in kb count?
#238
biobenkj
closed
4 months ago
2
Is kb-python capable of processing many samples in one command?
#237
shashkat
closed
4 months ago
2
kb-python version 0.28.2 giving problems on m1 mac
#236
shashkat
closed
4 months ago
6
SmartSeq3 Demultiplexed Fastq files
#235
AlisonKennedy
closed
4 months ago
4
cleanup anndata
#234
Yenaled
closed
5 months ago
0
Bump version: 0.28.0 → 0.28.1
#233
Yenaled
closed
6 months ago
0
Devel
#232
Yenaled
closed
6 months ago
0
Custom fasta and gtf file based on subset of genes for multiple species
#231
gracedai23
closed
5 months ago
3
Restructure unmapped SMART-seq3 BAM from ENA to proper fastqs for kb
#230
biobenkj
closed
6 months ago
5
Using kb -count with SMART-Seq mRNA LP (with UMIs)
#229
franziskadenk
closed
6 months ago
12
Issues with running RNA velocity (La Manno) analysis in kb_python 0.28.0
#228
NikTuzov
closed
6 months ago
5
Error when Running nac with tcc option
#227
bio-info-guy
closed
6 months ago
4
Custom Index with a new sequence
#226
lukais-iohan
closed
6 months ago
2
Confusion regarding Intronic Sequence Generation in new 'nac' Workflow
#225
bio-info-guy
closed
7 months ago
4
Release version 0.27.3 → 0.28.0
#224
Yenaled
closed
7 months ago
1
kb count settings/config for the new 10x Visium (11mm capture area) dataset
#223
gauravgadhvi
closed
6 months ago
4
Signals.SIGILL: 4 when running kb ref
#222
yquint21
closed
6 months ago
5
Add support for STORM- and VASA-seq
#221
biobenkj
closed
8 months ago
2
If it doesn't exist yet, is it possible to add an option that filters the genes by abundance
#220
NikTuzov
closed
8 months ago
3
kallisto index file not found index.idx_cdna
#219
feasiblee
closed
7 months ago
3
Effective length normalization for full-length UMI scRNA-seq data
#218
biobenkj
closed
7 months ago
8
Support for Demultiplexed Smart-seq3 data
#217
kvn95ss
closed
8 months ago
3
Support for SMARTSEQ3 single end data.
#216
hakobyansiras
closed
8 months ago
14
fixed RNA profiling
#215
yfarjoun
closed
9 months ago
2
the kb automatically terminate
#214
doudou159
closed
10 months ago
2
Remove np.matrix dependency
#213
JohnMMa
opened
11 months ago
1
Tutorial question on filtering out by mitochondrial content
#212
ScienceComputing
closed
11 months ago
5
Tutorial question on expected_num_cells
#211
ScienceComputing
closed
11 months ago
2
Update unit test
#210
Yenaled
closed
11 months ago
0
Update requirements.txt
#209
yfarjoun
closed
11 months ago
0
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