timbitz Whippet.jl issues

timbitz / Whippet.jl

Lightweight and Fast; RNA-seq quantification at the event-level

MIT License

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issues

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whippet index failed, link to download the hg38 GTF2.2 on this website does not work

#149 santataRU opened 3 days ago
1
DNAmer not defined

#148 Matthew47work opened 3 months ago
2
Is Whippet adapted for long reads?

#147 Oliverfeudj opened 3 months ago
1
how to quantify pair-end data

#146 ELMMA-FUNNY closed 3 months ago
0
Update README.md

#145 timbitz closed 7 months ago
0
Regarding ArgumentError: cannot create a mer with ambiguous nucleotides

#144 PRIYANKA-22091995 opened 7 months ago
1
Update README.md

#143 timbitz closed 8 months ago
0
ERROR: expected package `WaveletMatrices [c0580c95]` to be registered when compiling

#142 noahpieta opened 9 months ago
2
ERROR: LoadError: BoundsError: attempt to access BioSequences.LongDNASeq at index [65269405:65269446]

#141 dschwoerer opened 1 year ago
1
Merge

#140 timbitz closed 1 year ago
0
ERROR: LoadError: Cannot encode 78 to BioSequences.DNAAlphabet{2}()

#139 mrb20045 closed 1 year ago
3
Missing dependencies for Julia

#138 astrophys opened 1 year ago
5
How whippet is listing alternative events?

#137 pierreg2 opened 1 year ago
2
psi

#136 shregeno8 closed 1 year ago
0
Issue with BioSequences

#135 zoescherzer0318 closed 1 year ago
3
ERROR: LoadError: SystemError: opening file "/home/emanuele/Whippet.jl/bin/../index/graph.jls": No such file or directory

#134 emanueleraggi closed 1 year ago
4
Issue with ArgParse

#133 zoescherzer0318 closed 1 year ago
3
Fastq.gz files from different lanes

#132 shregeno8 closed 1 year ago
1
Any idea to generate VCF/VEP files from Whippet output files?

#131 ptnaimelmm opened 2 years ago
1
How to interpret complexity column in the .psi.gz output files?

#130 MorticiaGiulia opened 2 years ago
1
jnc read count

#129 BeatrizdeToledo closed 1 year ago
2
whippet-quant.jl does not output integer gene level read counts

#128 MiqG closed 2 years ago
2
Where is "graph.jls"?

#127 justinjisu closed 2 years ago
2
Optimal value for --bam-min-reads parameter

#126 narges-s opened 2 years ago
1
segfault using whippet-quant.jl

#125 tsgouros closed 2 years ago
4
ERROR: LoadError: BoundsError: attempt to access 2-element Array{Whippet.SGAlignNode,1} at index

#124 amitfenn closed 2 years ago
2
error index in Serializing splice graph index...

#123 BeatrizdeToledo closed 2 years ago
0
Probability for deltaPsi

#122 OlgaVT opened 2 years ago
2
what is forum for code questions?

#121 tsgouros closed 2 years ago
4
bam index file in .csi format

#120 akshaya-v opened 3 years ago
2
LICENSE to LGPL2.1

#119 timbitz opened 3 years ago
1
Error during quantification of FASTQ files

#118 dBenedek opened 3 years ago
12
1.6 Bugfix for BAM supplemented indexing

#117 timbitz closed 3 years ago
1
ERROR: LoadError: UndefVarError: BAM not defined

#116 Alex-Nesta closed 3 years ago
1
Updates for julia 1.6

#115 timbitz closed 3 years ago
1
--biascorrect specific error: LoadError: BoundsError: attempt to access 32nt DNA Sequence:

#114 rfara opened 3 years ago
4
Bugfixes for v1.5

#113 timbitz closed 3 years ago
1
regex ismatch deprecated for occursin

#112 timbitz closed 3 years ago
0
whippet-quant ERROR: LoadError: UndefVarError: shuffle not defined

#111 rfara closed 3 years ago
1
curseq is GTCTTGTTGTTGGGCTTG of type BioSequences.BioSequence{BioSequences.DNAAlphabet{2}}

#110 rfara closed 3 years ago
2
Update Whippet to current julia version v1.5.3

#109 timbitz closed 3 years ago
1
Option for reverse strand-specific data in bin/whippet-index.jl

#108 areyesq89 opened 3 years ago
0
how does whippet define exon skip events?

#107 mhjiang97 opened 3 years ago
4
Generate "sam | bam" files from the quantification step

#106 JamalEH opened 3 years ago
0
support for fasta files or bam files as input in whippet-quant?

#105 wbvguo opened 3 years ago
0
whippet-quant.jl error

#104 JamalEH closed 2 years ago
2
Splice junctions strandedness

#103 PeterVenhuizen opened 4 years ago
1
Is it normal to have different number of events for different samples with same index.jls?

#102 josegarciamanteiga opened 4 years ago
2
Fix broken link to Julia v0.6.4

#101 nuno-agostinho closed 4 years ago
1
LoadError: InexactError() with single end

#100 LucoLab opened 4 years ago
0