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<prev • 414 results • page 1 of 14 • next >
0
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1
answer
109
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1
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Tophat alignment and -g parameter
tophat rna-seq written 5 weeks ago by Sam • 50
0
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1
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315
views
1
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Usefulness of paired-end sequencing (noob question)
paired-end tophat rna-seq written 7 weeks ago by Sam • 50
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1
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1.9k
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1
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GFF problem - gtf_to_fasta (Tophat) outputs only 2 sequences from 70 entries in GFF?
gtf tophat gff rna-seq written 5.3 years ago by manekineko • 130 • updated 11 weeks ago by Biostar ♦♦ 20
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0
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119
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0
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tophat-fusion-post: IndexError: list index out of range
software error tophat written 3 months ago by Emily072020 • 10
3
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4
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10k
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7 follow
4
answers
Cuffdiff Says Sam Isn'T Sorted, Although It Handled It Cufflinks
gene tophat cufflinks bowtie transcription written 8.5 years ago by Rubellus • 10 • updated 3 months ago by 1152389206 • 0
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152
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Trouble running tophat ERROR 105 Unable to locate a modulefile for tophat/2.0.14
tophat rna-seq written 4 months ago by maithex • 0
3
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1
answer
5.3k
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1
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[Errno 8] Exec Format Error Using Tophat 1.3.1
tophat written 9.2 years ago by Marina Manrique • 1.3k • updated 6 months ago by Biostar ♦♦ 20
0
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0
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155
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0
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GTF to match transcriptome data in TopHat
gtf tophat transcriptome written 8 months ago by blur • 140
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0
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1.5k
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0
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Prioritizing Fusion Based On Tophat Result
reads fusion tophat written 7.2 years ago by Angel • 210 • updated 12 months ago by Biostar ♦♦ 20
1
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0
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336
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0
answers
How splice-aware aligner (RNA-Seq) deal with long gap (intron) penalty
hisat tophat alignment star rna-seq written 13 months ago by CY • 550 • updated 12 months ago by Biostar ♦♦ 20
3
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2
answers
359
views
5 follow
2
answers
Tophat Usage difficulty?
bowtie2 tophat alignment mapping written 12 months ago by jaqx008 • 70
0
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0
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3.0k
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0
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Tophat Error: It Tries To Execute Lines In Fastq Files
tophat bowtie error written 7.2 years ago by newDNASeqer • 710 • updated 13 months ago by Biostar ♦♦ 20
0
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0
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665
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0
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Bowtie 2 index files exist but return Error: Could not find Bowtie 2 index files (humanGRCh38.*.bt2l)
bowtie2 tophat rna-seq index written 15 months ago by skurkure • 0 • updated 13 months ago by Biostar ♦♦ 20
4
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2
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10k
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2
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Error: Could not find Bowtie 2 index files (GRCh38.*.bt2l)
bowtie2 tophat tophat2 bowtie rna-seq written 4.0 years ago by ashMC • 10 • updated 13 months ago by Arnaud Ceol • 850
13
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1
answer
2.1k
views
1
answer
Automatically feeding a good mate inner distance to TopHat2
tophat pe rna-seq written 4.7 years ago by umn_bist • 380 • updated 14 months ago by Biostar ♦♦ 20
2
votes
1
answer
1.9k
views
1
answer
Tophat prep_read error
illumina tophat rna-seq written 4.8 years ago by Yuka Takemon • 40 • updated 15 months ago by RamRS ♦ 30k
2
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1
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1.9k
views
1
answer
How to run tophat without gff file for bacterial genome
tophat gene expresssion rna-seq bacterial written 5.8 years ago by bassanio • 20 • updated 16 months ago by Biostar ♦♦ 20
9
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2
answers
5.4k
views
2
answers
Tophat - Expectancy Of Properly Paired Reads?
tophat rna-seq written 8.1 years ago by Johan • 870 • updated 16 months ago by Biostar ♦♦ 20
10
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3
answers
14k
views
6 follow
3
answers
How do I run Tophat?
tophat bowtie written 5.5 years ago by from the mountains • 110 • updated 16 months ago by h.mon ♦ 31k
3
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0
answers
311
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0
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Total number of junctions in junctions.bed generated by TopHat
tophat rna-seq written 16 months ago by justinkablan225 • 10
9
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2
answers
519
views
6 follow
2
answers
Convert fasta headers to GFF
htseq gff tophat rna-seq parsing written 16 months ago by alexis.groppi • 30
1
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0
answers
328
views
0
answers
Bowtie / Tophat failing on unmapped reads
tophat alignment rna-seq bowtie written 16 months ago by spitzer • 0
2
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3
answers
8.6k
views
8 follow
3
answers
Tophat Rna-Seq Mapping Quality
tophat mapping rna-seq quality written 7.5 years ago by siyu • 140 • updated 18 months ago by Biostar ♦♦ 20
11
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1
answer
616
views
7 follow
1
answer
TopHat mapping error
tophat bowtie rna-seq written 18 months ago by gokberk • 60 • updated 18 months ago by genomax ♦ 91k
0
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2
answers
578
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5 follow
2
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Directional Strand related settings for RNA-seq Analysis Software
htseq tophat rna-seq smartseq hisat2 written 18 months ago by BM • 60 • updated 18 months ago by Juke34 • 4.8k
0
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2
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3.0k
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2
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Tophat Error - What Does This Mean?
tophat error bowtie written 7.2 years ago by newDNASeqer • 710 • updated 18 months ago by Biostar ♦♦ 20
19
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6
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1.4k
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7 follow
6
answers
Tophat vs Bowtie alignment rates
bowtie2 tophat alignment written 20 months ago by am3 • 70
10
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1
answer
675
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1
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why reads align to other coordinates?
bowtie2 tophat alignment rna-seq align written 21 months ago by star • 260
2
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1
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1.4k
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1
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can i use tophat for ribo-seq data sets
ribo-seq tophat alignment written 5.1 years ago by A • 3.9k • updated 21 months ago by Biostar ♦♦ 20
5
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2
answers
992
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2
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batch effect in RNAseq analysis using tophat cufflinks pipeline
tophat cufflink rna-seq batch effect written 21 months ago by yff • 0 • updated 21 months ago by kristoffer.vittingseerup • 3.4k
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