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<prev • 135 results • page 1 of 5 • next >
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Quantifying abundances of transcripts using kallisto
next-gen kallisto rna-seq written 9 weeks ago by Manoj • 80 • updated 9 weeks ago by swbarnes2 ♦ 9.4k
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160
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multiple samples differential expression analysis
fastq kallisto differential expression written 10 weeks ago by julie_dddd • 10 • updated 10 weeks ago by swbarnes2 ♦ 9.4k
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159
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Kallisto output No target IDs
kallisto rna-seq written 10 weeks ago by julie_dddd • 10
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216
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vlm.adjust_totS_totU -- Input contains NaN, infinity or a value too large for dtype('float64')
velocyto loom kallisto single cell velocity written 12 weeks ago by ericrkofman • 10
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147
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Kallisto single cell velocity tutorial question
loom kallisto single cell velocity written 12 weeks ago by ericrkofman • 10 • updated 12 weeks ago by dsull • 1.8k
2
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369
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Kallisto Bustools Single Cell Velocity Issue: capture and count not working as expected
single-cell bustools rna velocity kallisto written 3 months ago by ericrkofman • 10
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242
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Is it good to merge transcripts tpm to gene which is of different gene type?
tpm kallisto rna-seq written 12 weeks ago by newbie • 90 • updated 12 weeks ago by wensulin93 • 0
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210
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Why counts to tpm gives different values compared to tpm from kallisto?
featurecounts tpm kallisto rna-seq rawcounts written 3 months ago by newbie • 90
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bash loop to python loop for google colabs
python loop kallisto colabs written 3 months ago by svilla • 0 • updated 3 months ago by Alex Reynolds ♦ 31k
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Sleuth Error in forderv/ Failed to allocate TMP or UGRP or they weren't cache line aligned: nth=12
R sleuth kallisto rna-seq written 3 months ago by mbartl13 • 0 • updated 3 months ago by ATpoint ♦ 44k
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212
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1
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Few genes had padj < 0.1
deseq2 unique alignment rate kallisto padj rna-seq written 3 months ago by guangshiqi.csu • 0 • updated 3 months ago by swbarnes2 ♦ 9.4k
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Kallisto quant error "std::bad_alloc"
quant kallisto rna-seq written 4 months ago by bryce.thomas • 0 • updated 3 months ago by Biostar ♦♦ 20
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238
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Building a cDNA and intron index for Kallisto/Bustools Single Cell Velocity for hg19
single-cell velocity introns kallisto bustools written 3 months ago by ekofman • 0
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240
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How to do DESeq2 for Kallisto
deseq2 kallisto rna-seq written 4 months ago by Manoj • 80
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167
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Sleuth Table - identical q-values
bioinformatics sleuth kallisto rna-seq written 5 months ago by arussell3483 • 20
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277
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Trouble with choosing the right reference transcriptome file for mm10
genome salmon kallisto rna-seq sequencing written 5 months ago by wyoo083 • 0
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Error in H5Fopen(file, "H5F_ACC_RDONLY", native = native) : HDF5. File accessibilty. Unable to open file.
software error biomart sleuth rna-seq kallisto written 9 months ago by ladavion • 10 • updated 7 months ago by jocelyn.petitto • 10
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1
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Kallisto and downstream analysis with tximport and DESeq2
tximport deseq2 kallisto rna-seq written 21 months ago by Mozart • 240
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Create a custom filter for pachterlab Sleuth package for RNAseq data
R sleuth kallisto rna-seq written 7 months ago by jonathanU • 40
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2
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256
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Meaning of columns in TSV Kallisto mapped file
tpm kallisto differential expression written 7 months ago by Antonio R. Franco • 4.5k
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183
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Custom gene alleles + Kallisto for proxy Allele-specific expression analysis
kallisto written 7 months ago by iraun • 3.8k
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2
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241
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Genes vs transcripts in RNA-seq analysis
R deseq2 deseq rna-seq kallisto written 7 months ago by rstepien095 • 0 • updated 7 months ago by caggtaagtat • 1.4k
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get gene ids running sleuth kallisto for differential gene expression
sleuth kallisto rna-seq written 4.9 years ago by frida.danielsson • 40 • updated 8 months ago by jocelyn.petitto • 10
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Kallisto TPM values
tpm kallisto written 2.7 years ago by oliveira.bhn • 10 • updated 9 months ago by CrisMar • 80
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Importing Kallisto counts with tximport
rhdf5 transcriptomics kallisto written 9 months ago by Rogerio Ribeiro • 30
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527
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Low mapping rate with splice aware aligners (kallisto, HISAT2) but not bowtie2
bowtie2 kallisto rna-seq hisat2 written 9 months ago by a.palmer • 20
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How is the bootstrapping information from kallisto treated in DeSeq2 when imported using tximport?
tximport deseq2 kallisto rna-seq written 9 months ago by divya.nandakumar • 20 • updated 9 months ago by ATpoint ♦ 44k
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Discrepancy in number of pseudoaligned reads for read quantification with Kallisto
pseudo-alignment kallisto rna-seq written 9 months ago by nicolasgoedert1997 • 0 • updated 9 months ago by ATpoint ♦ 44k
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Why does kallisto indexing require odd-length k-mers?
seeding kallisto pseudoalignment written 9 months ago by ningyuan.sg • 0 • updated 9 months ago by ATpoint ♦ 44k
3
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5 follow
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Kallisto: Impact of chosen reference transcriptome on the resulting TPMs
kallisto rna-seq written 11 months ago by iraun • 3.8k • updated 9 months ago by Biostar ♦♦ 20
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