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15
votes
7
replies
2.9k
views
Can Tophat2 Align a Book?
Tophat2
updated 2.6 years ago by 45k • written 10.1 years ago by ★ 1.5k
14
votes
2
replies
10.0k
views
Demultiplexing reads with index present in the labels
demultiplex illumina index rnaseq
7.9 years ago by tiago211287 ★ 1.5k
7
votes
16
replies
11k
views
How to split a fastq file into each corresponding sample.fastq?
demultiplexing fastq illumina
updated 7.9 years ago by 7.4k • written 7.9 years ago by ★ 1.5k
0
votes
1
reply
1.7k
views
Bam file without any sequence
psl2sam blat sam
8.3 years ago by tiago211287 ★ 1.5k
1
vote
1
reply
1.2k
views
Curiosity about DESeq2
DESeq2 RNA-Seq Bioconductor
8.4 years ago by tiago211287 ★ 1.5k
2
votes
4
replies
5.1k
views
Errors when extracting significant genes per GO.id from topgo data
RNA-Seq Bioconductor topGO R
8.4 years ago by tiago211287 ★ 1.5k
3
votes
6
replies
2.4k
views
Retrieving data of all exons from UCSC using MySQL
ucsc mysql
8.8 years ago by tiago211287 ★ 1.5k
1
vote
2
replies
3.0k
views
Why Gencode GTF and UCSC table browser.bed for all exons have different exon annotations?
genome ucsc bed gtf exon
updated 8.8 years ago by ★ 5.2k • written 8.8 years ago by ★ 1.5k
0
votes
1
reply
2.7k
views
rMATS error in the instalation test
rMATS rnaseq splicing
9.3 years ago by tiago211287 ★ 1.5k
16
votes
2
replies
5.3k
views
How can I Get png figures of UCSC genome browser automatically?
ucsc genome browser genome browser rnaseq
9.4 years ago by tiago211287 ★ 1.5k
1
vote
2
replies
2.7k
views
How can I make all tracks on genome browser always scale relative to each other?
genome browser rnaseq
9.4 years ago by tiago211287 ★ 1.5k
4
votes
2
replies
2.9k
views
BINGO plugin in cytoscape giving empty output
Bingo cytoscape
updated 3.4 years ago by 45k • written 10.6 years ago by ★ 1.5k
5
votes
8
replies
6.2k
views
How can I know what genes each Trinity ID are ?
Blat Trinity Denovo assembly rnaseq
updated 9.5 years ago by ▴ 950 • written 9.5 years ago by ★ 1.5k
2
votes
0
replies
1.6k
views
EXPRTOGTC module from cufflinks
cufflinks expr
updated 2.8 years ago by 45k • written 9.8 years ago by ★ 1.5k
0
votes
2
replies
2.8k
views
ggbio package only works with h19 genome
RNA-Seq ggplot2 R ggbio
updated 2.9 years ago by 45k • written 9.7 years ago by ★ 1.5k
1
vote
3
replies
2.3k
views
Dataset normalization before gene ontology analysis
Gene ontology Normalization RNA-Seq bioconductor
updated 9.8 years ago by ▴ 790 • written 9.8 years ago by ★ 1.5k
4
votes
3
replies
6.0k
views
GO analysis and the universe set of genes
GO R
updated 2.9 years ago by 45k • written 9.8 years ago by ★ 1.5k
2
votes
1
reply
2.0k
views
Cuffcompare protocol, error of sintax in awk command
RNA-Seq cuffcompare awk
updated 2.8 years ago by 45k • written 9.9 years ago by ★ 1.5k
0
votes
4
replies
4.2k
views
What can STAR-Fusion do ?
star star-fusion
updated 2.8 years ago by 45k • written 9.8 years ago by ★ 1.5k
3
votes
2
replies
4.5k
views
Question about the DESeq2: log2foldchange contradictory
RNA-Seq R Deseq2
updated 2.8 years ago by 45k • written 9.8 years ago by ★ 1.5k
3
votes
4
replies
5.7k
views
What does this Warning in HTSeq-count means? (Warning: Mate pairing was ambiguous)
RNA-Seq
updated 24 months ago by ▴ 10 • written 9.9 years ago by ★ 1.5k
1
vote
0
replies
3.7k
views
What is the definition of a transfrag? What is a transfrag? EDIT:(And faux-read?)
k-mer transfrag cuffcompare RNA-Seq cufflinks
updated 2.8 years ago by 45k • written 9.9 years ago by ★ 1.5k
3
votes
13
replies
3.9k
views
6 follow
What does it mean that: 100% of my alignment are discordant?
tophat alignment rna-seq
updated 2.8 years ago by 45k • written 9.9 years ago by ★ 1.5k
1
vote
7
replies
2.2k
views
Same alignment but with different output on tophat2, any ideas?
sam samstat RNA-Seq alignment
updated 2.8 years ago by 45k • written 9.9 years ago by ★ 1.5k
5
votes
9
replies
3.9k
views
Why the file unmapped.bam, from tophat has all reads with mapq =/> 30?
samstat tophat mapq
updated 2.8 years ago by 45k • written 9.9 years ago by ★ 1.5k
2
votes
3
replies
4.6k
views
Error when trying to fix the contigs order in the reference and vcf for FastaAlternateReferenceMaker
RNA-Seq GATK FastaAlternateReferenceMaker
updated 2.8 years ago by 45k • written 9.9 years ago by ★ 1.5k
8
votes
6
replies
6.9k
views
Mouse strains and Reference genome choice
reference-genome mouse-strains
updated 2.8 years ago by 45k • written 9.9 years ago by ★ 1.5k
1
vote
3
replies
2.6k
views
Can some known person explain to me the class code of NONCODE database?
RNA-Seq noncode
updated 2.7 years ago by 45k • written 10.0 years ago by ★ 1.5k
1
vote
1
reply
1.2k
views
Analyse stranded and non-stranded RNA-seq data together?
RNA-seq
updated 2.5 years ago by 45k • written 10.2 years ago by ★ 1.5k
1
vote
3
replies
2.8k
views
How can I be sure that I've made a good GO analysis?
RNA-Seq Ensembl Gene Onthology
updated 3.3 years ago by 45k • written 10.5 years ago by ★ 1.5k
2
votes
2
replies
1.9k
views
How Can I fusionate 2 tables in R? So I can Count data.
Ensembl rna-seq R
updated 3.3 years ago by 45k • written 10.5 years ago by ★ 1.5k
2
votes
8
replies
4.6k
views
Help with 2 list in R, comparing gene ID to get refined information from both
Ensembl Gene-list RNA-Seq R
updated 3.3 years ago by 45k • written 10.5 years ago by ★ 1.5k
2
votes
2
replies
3.1k
views
Mapping My gene list within chromosome bands
sequencing RNA-Seq
updated 3.3 years ago by 45k • written 10.5 years ago by ★ 1.5k
0
votes
1
reply
2.8k
views
ClueGO question about cluster visualization.
Cytoscape Network Cluego
updated 3.4 years ago by 45k • written 10.6 years ago by ★ 1.5k
2
votes
2
replies
2.5k
views
Question about gene ontology annotation: When analysing DE genes do we look for all DE or we separate over and under expression?
Gene Ontology Annotation
updated 10.6 years ago by ★ 2.9k • written 10.6 years ago by ★ 1.5k
13
votes
9
replies
6.5k
views
How the best way to verify the up and down regulated genes in a list of DE genes, generated from DEseq?
RNA-Seq R DEseq
updated 3.4 years ago by 45k • written 10.6 years ago by ★ 1.5k
11
votes
22
replies
13k
views
Error at the end of HT-seq Analysis and output.txt with 0 bytes in size
Empty Count HTseq Error
updated 4.3 years ago by 45k • written 10.9 years ago by ★ 1.5k
10
votes
5
replies
2.8k
views
Conclusions from Volcano plot
volcano plot
updated 3.5 years ago by 45k • written 10.8 years ago by ★ 1.5k
10
votes
12
replies
8.6k
views
Removing Outliers from volcano plot
volcanoplot outliers
updated 3.3 years ago by 45k • written 10.8 years ago by ★ 1.5k
11
votes
2
replies
13k
views
What exactly means the Dispersion Plot DESeq2?
DESeq2 Dispersionplot
updated 3.5 years ago by 45k • written 10.9 years ago by ★ 1.5k
0
votes
1
reply
3.8k
views
Question about Volcano plot
volcano-plot
updated 3.5 years ago by 45k • written 10.9 years ago by ★ 1.5k
4
votes
4
replies
5.2k
views
DESeq input preparation
DESeq
updated 2.7 years ago by 45k • written 10.9 years ago by ★ 1.5k
0
votes
2
replies
2.1k
views
Question about tophat2 pipeline
tophat2
10.9 years ago by tiago211287 ★ 1.5k
43 results • Page 1 of 1
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