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6
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2.6k
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Salmon and reads order in fastq in quasi-mapping-based mode
Salmon
updated 6.4 years ago by
ATpoint
82k • written 6.4 years ago by
ZheFrench
▴ 570
4
votes
1
reply
1.6k
views
Access old version of ensembl via rest API
ensembl
updated 6.4 years ago by
Emily
23k • written 6.4 years ago by
ZheFrench
▴ 570
0
votes
0
replies
2.2k
views
Comment:
C: Jbrowse install via conda, how do you launch it ?
6.5 years ago by
ZheFrench
▴ 570
1
vote
2
replies
2.2k
views
Jbrowse install via conda, how do you launch it ?
jbrowse
conda
6.5 years ago by
ZheFrench
▴ 570
0
votes
0
replies
3.2k
views
Comment:
C: How Do you find constitutive exons in Ensembl or UCSC
6.6 years ago by
ZheFrench
▴ 570
0
votes
0
replies
3.2k
views
Comment:
C: How Do you find constitutive exons in Ensembl or UCSC
6.6 years ago by
ZheFrench
▴ 570
7
votes
7
replies
3.2k
views
How Do you find constitutive exons in Ensembl or UCSC
exons constituve
ensembl
ucsc
biomart
updated 6.6 years ago by
Pierre Lindenbaum
161k • written 6.6 years ago by
ZheFrench
▴ 570
1
vote
1
reply
2.0k
views
multiqc : sum up several _Log.final.out into one
RNA-Seq
updated 6.7 years ago by
Phil Ewels
★ 1.4k • written 7.0 years ago by
ZheFrench
▴ 570
0
votes
1
reply
3.5k
views
Comment:
C: deeptools PCA vs ChIPQC PCA
6.7 years ago by
ZheFrench
▴ 570
8
votes
4
replies
3.5k
views
deeptools PCA vs ChIPQC PCA
deeptools
ChIPQC
Diffbind
chipseq
updated 6.7 years ago by
Devon Ryan
104k • written 6.7 years ago by
ZheFrench
▴ 570
0
votes
0
replies
1.7k
views
How to get flanking exon coordinate based on gencode gtf/gff or biomart
biomart
gff
annotation
gtf
gencode
6.7 years ago by
ZheFrench
▴ 570
2
votes
1
reply
3.7k
views
Common Cutoff in TPM unit to filter out gene considered as low expressed.
RNA-Seq
TPM
Salmon
updated 7.2 years ago by
Devon Ryan
104k • written 7.2 years ago by
ZheFrench
▴ 570
4
votes
1
reply
15k
views
How do you normalize Transcript per Million TPM to compare between samples ?
RNA-Seq
TPM
STAR
salmon
quantification
7.3 years ago by
ZheFrench
▴ 570
0
votes
0
replies
19k
views
Comment:
C: Trimming TruSeq Universal Adapter (Trimmomatic)
7.4 years ago by
ZheFrench
▴ 570
0
votes
0
replies
3.7k
views
SVA + DESEQ2 : Looking for batcheffect in RNA-SEQ
DESEQ2
SVA
RNA-Seq
Batch
7.4 years ago by
ZheFrench
▴ 570
0
votes
0
replies
2.2k
views
Comment:
C: UCSC Viewer : Change color of the reads for stranded RNASEQ as IGV "first-of-pa
7.5 years ago by
ZheFrench
▴ 570
0
votes
2
replies
2.2k
views
UCSC Viewer : Change color of the reads for stranded RNASEQ as IGV "first-of-pair-strand
UCSC
IGV
visualisation
7.5 years ago by
ZheFrench
▴ 570
0
votes
2
replies
3.0k
views
Comment:
C: Do you use anti-sens reads for differential gene expression analysis with Strand
7.5 years ago by
ZheFrench
▴ 570
0
votes
2
replies
2.1k
views
Is it correct to merge bigwig with TPM values from rnaSeq from different biological replicates for the same condition ?
RNA-Seq
wig
bigwg
visualisation
updated 7.5 years ago by
Satyajeet Khare
★ 1.6k • written 7.5 years ago by
ZheFrench
▴ 570
7
votes
4
replies
3.0k
views
Do you use anti-sens reads for differential gene expression analysis with Stranded Paired-End Library ?
RNA-Seq
gene expression
DE
reads count
STAR
updated 7.6 years ago by
Devon Ryan
104k • written 7.6 years ago by
ZheFrench
▴ 570
0
votes
0
replies
5.6k
views
Comment:
C: Snpsift extractFields : How Fields Annotation ANN[*].XX is working ?
8.3 years ago by
ZheFrench
▴ 570
1
vote
2
replies
5.6k
views
Snpsift extractFields : How Fields Annotation ANN[*].XX is working ?
vcf
Snpeff
annotation
updated 21 months ago by
Ram
43k • written 8.4 years ago by
ZheFrench
▴ 570
0
votes
1
reply
5.4k
views
Comment:
C: Why sequence is unmapped by bwa but position is given in Sam file and also can
9.0 years ago by
ZheFrench
▴ 570
5
votes
2
replies
4.4k
views
Samtools tview : what does underlined reads mean ? Secondary or Orphan
samtools
updated 15 months ago by
Ram
43k • written 9.0 years ago by
ZheFrench
▴ 570
0
votes
0
replies
1.3k
views
How is computed Mean Coverage from Illumina MiseqReporter ?
sequencing
updated 22 months ago by
Ram
43k • written 9.1 years ago by
ZheFrench
▴ 570
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