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<prev • 113 results • page 1 of 4 • next >
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Transcriptomic assembly Stringtie
assembly stringtie rna-seq written 11 days ago by Nelislam4 • 0 • updated 11 days ago by ATpoint ♦ 24k
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113
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Stringtie and prepDE
stringtie written 13 days ago by panacotaforcota • 0 • updated 13 days ago by ATpoint ♦ 24k
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176
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Stringie output doesn't have any gene names!
stringtie rna-seq written 20 days ago by chahat_u • 120 • updated 15 days ago by kristoffer.vittingseerup • 2.4k
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7 follow
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How to extract fasta sequences from assembled transcripts generated by Stringtie
fasta gtf file stringtie sequences written 2.4 years ago by seta • 1.2k • updated 5 weeks ago by Juke-34 • 2.8k
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127
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lncRNA Detection with Tuxedo Suite
assembly stringtie tuxedo rna-seq lncrna written 6 weeks ago by 27atcggcta27 • 90
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HISAT2/stringtie: intron impact on expression
tpm stringtie mrna expression rna-seq hisat2 written 12 weeks ago by Adrian Pelin • 2.3k • updated 12 weeks ago by kristoffer.vittingseerup • 2.4k
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How to quantify gene expression when stringtie considers two adjacent genes as single gene?
htseq stringtie deseq2 de rna-seq written 3 months ago by kousi31 • 0
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114
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Mapping a list of sequences to gene symbol
stringtie salmon htseqcount hisat2 written 12 weeks ago by catechize.2.learn • 110
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123
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Does StringTie need strand information if HISAT2 was run with strand-specific information
stringtie hisat2 written 12 weeks ago by piyushjo • 170
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StringTie --merge creates the same id for neighbouring genes
ensembl stringtie gene assembly written 3 months ago by marina.v.yurieva • 480
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5 follow
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Running prepare.py on remote server
stringtie rna-seq prepde.py written 4 months ago by suneetamodekurty77 • 0 • updated 3 months ago by kristoffer.vittingseerup • 2.4k
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Identify jumbled transcripts (scrambled exons) using HISAT2, stringtie, and GFFcompare?
stringtie rna-seq gffcompare hisat2 written 6 months ago by wolfgang.rumpf • 10 • updated 3 months ago by Biostar ♦♦ 20
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How to obtain transcript level TPM using stringtie?
stringtie rna-seq written 4 months ago by kousi31 • 0 • updated 4 months ago by ruisergioluis • 20
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Processing RNA-seq expression for inter sample classification
stringtie classification rna-seq dge written 5 months ago by SJ Basu • 30
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6 follow
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Can I ignore these MSTRG genes in downstream analysis (pantherdb.org)?
stringtie deseq2 rna-seq written 6 months ago by Fawzi Yassine • 10 • updated 5 months ago by Biostar ♦♦ 20
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Stringtie: use htseq-count or prepDE.py to extract reads?
stringtie deseq2 rna-seq edger written 5 months ago by heyang • 0 • updated 5 months ago by ATpoint ♦ 24k
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Isoform level differential expression
stringtie ballgown rna-seq written 6 months ago by rnaseql • 0
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StringTie strandness of library in dUTP protocol
rnaseq libraryprep stringtie dutp written 6 months ago by raquelgarza95 • 40 • updated 6 months ago by Juke-34 • 2.8k
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Warning: gene "NR_111945" (on chr1) has reference transcripts on both strands?
stringtie rna-seq written 6 months ago by swarajgaikwad15 • 0 • updated 6 months ago by Devon Ryan ♦ 92k
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hisat2-stringtie-ballgown pipeline gives high p-value and q-value for RNA-seq of Arabidopsis thaliana
ballgown arabidopsis stringtie rna-seq hisat2 written 7 months ago by tiancaigg • 0
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getting the test results of multiple transcripts; even though, I am using gene-level analysis
stringtie rna-seq written 7 months ago by Fawzi Yassine • 10
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Warning: no reference transcripts were found when map the reads to reference sequences by using stringtie
stringtie rna-seq written 2.1 years ago by Yuyin110 • 10 • updated 7 months ago by Kanoo • 0
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ballgown error: Error in file(file, "rt") : invalid 'description' argument Calls: ballgown -> read.table -> file
ballgown stringtie rna-seq written 7 months ago by RNAseqer • 110
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415
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Problems with the reference genome in Stringtie
stringtie reference genome rna-seq lncrna written 7 months ago by iraia.munoa • 70 • updated 7 months ago by Devon Ryan ♦ 92k
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Too low FPKM values from StringTie
new tuxedo stringtie rna-seq written 8 months ago by SJ Basu • 30
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555
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Stringtie elimination of important transcripts
assembly stringtie alignment rna-seq hisat2 written 9 months ago by ra2967 • 20
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How to map RNA-seq with hisat2, stringtie, an assembly fasta, a gtf file, and a transcript fasta?
stringtie hisat2 mapping transcriptome written 9 months ago by O.rka • 120 • updated 9 months ago by swbarnes2 ♦ 6.7k
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StringTie - Multimapped reads
assembly stringtie rna-seq multi-mapped reads written 9 months ago by sneha108.ss • 0 • updated 9 months ago by kristoffer.vittingseerup • 2.4k
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9 follow
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Regarding getting gene count tables for DeSeq from StringTie using prepDE.py
stringtie rna-seq written 2.1 years ago by pixie@bioinfo • 1.4k • updated 9 months ago by kashifahmad750 • 0
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Add double qoutes around transcript_id in gtf file
gtf stringtie rna-seq awk written 9 months ago by BioBaby • 10 • updated 9 months ago by finswimmer ♦ 12k
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