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7
votes
0
answers
118
views
0
answers
Transcriptome analysis using tophat and bowtie
software error bowtieindex tophat bowtie written 5 days ago by NAVID.BAVI • 0 • updated 4 days ago by Ram ♦ 17k
6
votes
1
answer
127
views
1
answer
Problem mapping with STAR
tophat star hisat2 written 7 days ago by alvarocentron91 • 0 • updated 7 days ago by WouterDeCoster ♦ 32k
4
votes
7
answers
5.0k
views
7 follow
7
answers
Write Failure In Tophat 1.3.1 X86_64
tophat splicing sequencing written 7.2 years ago by Gabrielw • 60 • updated 14 days ago by Ram ♦ 17k
1
vote
2
answers
204
views
2
answers
Difference between two count table that created from same fastq files?
gtf tophat featurecounts rna-seq counttable written 23 days ago by cilgaiscan • 30 • updated 22 days ago by h.mon ♦ 19k
1
vote
0
answers
141
views
0
answers
TopHat Error: Couldn't build bowtie index with err = -11
tophat rna-seq bowtie written 4 weeks ago by Sun Jiji • 0
0
votes
1
answer
1.5k
views
1
answer
why i cant have sam, sorted bam or bed by tophat output?
tophat bam written 3.0 years ago by F • 3.1k • updated 5 weeks ago by WouterDeCoster ♦ 32k
4
votes
1
answer
166
views
1
answer
Different version of Tophat gives me different number of mapped reads
tophat alignment rna-seq written 6 weeks ago by BioDH • 0 • updated 6 weeks ago by swbarnes2 ♦ 4.0k
0
votes
0
answers
135
views
0
answers
Tophat2 Aligning extremely short reads
tophat alignment rna-seq sequencing written 9 weeks ago by biogirl04 • 0 • updated 7 weeks ago by Biostar ♦♦ 20
2
votes
0
answers
2.2k
views
0
answers
tophat failed: Warning: junction database is empty!
tophat mapping written 3.6 years ago by biolab • 1.0k • updated 7 weeks ago by Biostar ♦♦ 20
1
vote
2
answers
3.2k
views
5 follow
2
answers
How To Plot Rarefaction/Saturation Curve Based On Bam File Generated By Tophat?
tophat written 5.3 years ago by huangqp1984 • 10 • updated 8 weeks ago by achamess • 30
0
votes
1
answer
167
views
1
answer
extract one-side unmapped reads from sam
tophat bam samtools sam written 3 months ago by liorglic • 40 • updated 3 months ago by Carlo Yague • 4.2k
5
votes
1
answer
4.6k
views
6 follow
1
answer
tophat, the parameter "Expected inner distance between mate pairs"?
tophat expected inner distance between mate pairs written 3.6 years ago by lin.pei26 • 60 • updated 3 months ago by Biostar ♦♦ 20
0
votes
2
answers
645
views
2
answers
How to check if the mapping results from tophat2 are correct?
tophat mapping rna-seq written 2.1 years ago by mirza • 80 • updated 4 months ago by Biostar ♦♦ 20
0
votes
1
answer
178
views
1
answer
Tophat running error
tophat rna-seq written 4 months ago by mahnazkiani • 40 • updated 4 months ago by genomax ♦ 55k
1
vote
1
answer
218
views
5 follow
1
answer
comparing mapping statistics on s. pombe alignment (Star vs. tophat)
tophat alignment rna-seq pombe star written 5 months ago by dho322 • 0 • updated 5 months ago by Michael Dondrup ♦ 44k
1
vote
0
answers
181
views
0
answers
The problem about tophat software -G parameter
tophat alignment rna-seq written 5 months ago by Wayne Lee • 10
0
votes
0
answers
392
views
0
answers
Reducing error bars on TopHat RNA expression analysis
R tophat rna-seq bowtie written 9 months ago by waterspring • 0 • updated 5 months ago by Biostar ♦♦ 20
8
votes
1
answer
304
views
1
answer
Tophat not installing with Biostar Handbook
tophat blast from the past: the tuxedo suite written 5 months ago by k.e.pendleton • 20 • updated 5 months ago by h.mon ♦ 19k
3
votes
0
answers
333
views
0
answers
Tophat Error: Make in Mac OSX
tophat make rna-seq written 6 months ago by vharshavardhanan • 30 • updated 6 months ago by Ram ♦ 17k
6
votes
2
answers
1.0k
views
5 follow
2
answers
TopHat installation error
tophat written 16 months ago by salamandra • 170 • updated 8 months ago by Bilal • 20
0
votes
1
answer
649
views
1
answer
RNA SEQ ERCC
ercc tophat rna-seq bowtie written 9 months ago by Payal • 30
3
votes
1
answer
569
views
1
answer
Why different rna-seq aligners need to be used for Ion Torrent data compared with illumina?
tophat bbmap mira rna-seq hisat2 written 8 months ago by Bioinfo • 240 • updated 8 months ago by h.mon ♦ 19k
2
votes
1
answer
1.3k
views
1
answer
TopHat Failed In 'Reporting output tracks' Stage
software error tophat tophat2 rna-seq written 21 months ago by ivan.molodtsov • 10 • updated 8 months ago by zuolin.bai • 0
5
votes
2
answers
2.4k
views
2
answers
Tophat2 shows error during running
python tophat rna-seq written 3.3 years ago by Whoknows • 650 • updated 9 months ago by Rahul Sharma • 560
2
votes
0
answers
625
views
0
answers
TOPHAT error in mapping left_kept_reads step during a mapping with fusion search with bowtie1
fusion tophat bowtie written 9 months ago by Gabriel Wajnberg • 60
1
vote
0
answers
453
views
0
answers
Tophat Reporting output tracks, run out of memory, how to solve?
tophat rna-seq written 9 months ago by zoukai3412085 • 0 • updated 9 months ago by WouterDeCoster ♦ 32k
4
votes
5
answers
4.8k
views
5
answers
Tophat error : Error: gtf_to_fasta returned an error.
tophat next-gen rna-seq written 3.7 years ago by nikhilvgbt • 0 • updated 10 months ago by Meiyue Wang • 0
9
votes
2
answers
801
views
5 follow
2
answers
Alignment dropped with Salmon
tophat salmon rna-seq written 10 months ago by Sharon • 340
2
votes
0
answers
682
views
0
answers
Getting Error with bowtie2! "Error: Couldn't build bowtie index with err = 1"
tophat alignment rna-seq bowtie sequencing written 10 months ago by baunruh • 0 • updated 10 months ago by genomax ♦ 55k
4
votes
1
answer
416
views
1
answer
How can we validate RNAseq differential gene expressions?
cuffdiff tophat salmon rna-seq edger written 10 months ago by Sharon • 340 • updated 10 months ago by Devon Ryan ♦ 84k
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