pachterlab kallisto issues

pachterlab / kallisto

Near-optimal RNA-Seq quantification

https://pachterlab.github.io/kallisto

BSD 2-Clause "Simplified" License

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issues

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lr-kallisto quant-tcc seg fault with bulk ONT

#463 sbresnahan opened 2 days ago
2
Unable to retrieve spliced/unspliced RNA from single nuclei isolation

#462 hyjforesight closed 1 week ago
1
Devel

#461 Yenaled closed 1 week ago
0
kallisto uses one thread instead of 14 assigned for it due to index building from genome building MPHF and creating equivalence classes steps.

#460 warp-felinidae closed 2 weeks ago
1
Kallisto Indexing runs but produces no data

#459 arese001 opened 2 weeks ago
1
Does kallisto bus in single cell mode (-x with anything not "bulk") turn off long read mode?

#458 raysinensis closed 3 weeks ago
4
lr-kallisto not producing hdf5 files for bulk long-read RNA seq data

#457 apsteinberg closed 2 weeks ago
3
Using lr-kallisto for quantifying long-read bulk RNA-seq

#456 alanlamsiu closed 2 weeks ago
11
About k-mer size

#455 border-info-nt closed 1 month ago
5
related to: Illegal instruction error when running kallisto index

#454 molly-hetheringtonrauth opened 1 month ago
7
Can Kallisto align nucleotide sequences to protein database for calculating CPM

#453 xiaohong88999 opened 1 month ago
1
Effect of Kmer size on quantification

#452 Jayesh-Kumar-Sundaram opened 2 months ago
0
Distfile prefix changed for 0.51.0

#451 outpaddling opened 2 months ago
2
lr-kallisto dorado unaligned bam files

#450 MustafaElshani opened 2 months ago
6
Creating index for lrKallisto

#449 ipatop closed 2 weeks ago
15
lr-kallisto

#448 Yenaled closed 2 months ago
0
kallisto ref died with <Signals.SIGILL: 4>.

#447 yeroslaviz closed 2 months ago
5
Behavior of kallisto quant with multiple lanes

#446 rsiani closed 2 months ago
2
Undocumented CPU Requirements?

#445 aralbright opened 2 months ago
1
Getting isoform information from 10x 3' data with the --tcc option

#444 BKover99 closed 3 months ago
3
Memory overflow with kb_ref

#443 MartinezRuiz-Carlos closed 4 months ago
2
Revert "Update batch processing length normalization to match non-batch processing length normalization"

#442 Yenaled opened 4 months ago
0
Update batch processing length normalization to match non-batch processing length normalization

#441 bound-to-love closed 4 months ago
0
Kallisto index for ribo-depleted RNAseq libraries

#440 MartinezRuiz-Carlos closed 4 months ago
5
Support for SMART-Seqv4

#439 cakeinspace closed 4 months ago
2
I want to build an index with a geneses I have. Kallisto index errors out.

#438 lcamVz closed 4 months ago
2
Using kb-python for mars-seq

#437 sam-shariati opened 4 months ago
0
lr-kallisto, adding long read pseudoalignment and quantification options

#436 bound-to-love closed 4 months ago
0
Question about kallisto indexes

#435 st4302 opened 5 months ago
1
kallisto gene vs transcript count

#434 Rajesh-HKU opened 5 months ago
4
Feature request: Standalone pseudoalignment -> BAM output

#433 bbimber closed 5 months ago
2
Segmentation fault with kallisto quant

#432 bbimber closed 5 months ago
4
Facing issues while building on PPC64LE architecture.

#431 vinodk99 opened 5 months ago
10
Read-level pseudoalignment data that includes cellbarcode and UMI?

#430 bbimber closed 5 months ago
6
Error encountered when quantifying single-end reads with zero variance

#429 MohHallal closed 6 months ago
2
Kallisto handling multiple reads from single transcript?

#428 stromk opened 6 months ago
1
Kallisto for Parsebio

#427 rootze opened 7 months ago
1
building Index aborted

#426 ghost closed 7 months ago
2
Kallisto abundance accuracy with pseudogenes

#425 andrewxue98 closed 6 months ago
2
kallisto 0.50.1 fails with "Illegal instruction" when built on machines with AVX-512

#424 stianlagstad opened 7 months ago
2
Using kb to match the output of kallisto pseudo?

#423 stiv1n closed 8 months ago
4
is it the 'clipped off poly-A tail' and 'clipped off poly-A tail' right?

#422 Bianzh1024 opened 8 months ago
1
Mapping kallisto equivalence classes to actual transcript sequences

#421 rubenchazarra opened 9 months ago
8
kallisto quant 0.50.1 linux, illegal instruction

#420 deborah-chasman opened 9 months ago
1
Kallisto total UMI difference between velocity and novelocity modes. (single cell)

#419 mortunco opened 9 months ago
4
UMI count per transcript

#418 MengjunWu closed 10 months ago
4
estimate read counts of a specific region of a transcript

#417 zixuanxie opened 10 months ago
1
Windows release not available for v0.50.1

#416 GuyTeichman closed 10 months ago
2
Change STORM-seq to uppper case for compatibility with kb_python

#415 genomics-kl opened 10 months ago
0
kallisto quant trying to allocate a huge amount of data

#414 robert-player closed 10 months ago
2