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questions
0
votes
0
replies
414
views
Where are the barcode sequences of the ion torrent data
demultiplexing
barcodes
iontorrent
17 months ago by
lkianmehr
▴ 100
2
votes
3
replies
1.3k
views
any pipeline for small non coding RNA analysis from total RNA-seq
lhpRNA
RNA-seq
snRNA
pipeline
3.1 years ago by
lkianmehr
▴ 100
0
votes
1
reply
485
views
How do I find the percentage of paired-end fastq files containing a given string
fastq
bbduk
updated 3.1 years ago by
GenoMax
141k • written 3.1 years ago by
lkianmehr
▴ 100
0
votes
1
reply
835
views
How to calculate the percentage of a repetitive motif in Fastq file
RNA-Seq
sequence
fastq
bbtools
updated 3.9 years ago by
Asaf
10k • written 3.9 years ago by
lkianmehr
▴ 100
1
vote
1
reply
665
views
quantify tRNA-derived fragments on RNA-seq data
RNA-Seq
tRNA-derived fragments
Salmon
4.1 years ago by
lkianmehr
▴ 100
7
votes
8
replies
2.2k
views
6 follow
How do concatenate different fasta file
concatenate
fasta
updated 4.2 years ago by
nadiawerksfoon
• 0 • written 5.5 years ago by
lkianmehr
▴ 100
1
vote
2
replies
766
views
how should be coverage track of technical replicates of alignment visualization in BAM format?
IGV
BAM
visualization
4.7 years ago by
lkianmehr
▴ 100
2
votes
1
reply
1.6k
views
some questions to do GO enrichment analysis
Gene ontology
RNA-seq
Mouse
updated 4.8 years ago by
Biostar
20 • written 5.3 years ago by
lkianmehr
▴ 100
2
votes
5
replies
1.3k
views
How to get proportion of specific sequence in fastq file
specific sequence
fastq
RNA-Seq
updated 5.2 years ago by
shenwei356
8.4k • written 5.2 years ago by
lkianmehr
▴ 100
1
vote
3
replies
1.8k
views
gene ontology analysis based on transcript biotype
gene ontology
transcript
biotype
updated 5.3 years ago by
EagleEye
7.5k • written 5.3 years ago by
lkianmehr
▴ 100
0
votes
1
reply
1.9k
views
how do normalization for transcript length
transcript coverage
plot
salmon
tximport
5.3 years ago by
lkianmehr
▴ 100
2
votes
3
replies
1.2k
views
how to get percent identity between two RNA-seq fastq files?
percent identity
RNA-seq
updated 5.4 years ago by
Pierre Lindenbaum
161k • written 5.4 years ago by
lkianmehr
▴ 100
0
votes
3
replies
1.5k
views
repeatmask fasta file
repeatmask
TEelements
Salmon
Index
updated 5.4 years ago by
Biostar
20 • written 5.5 years ago by
lkianmehr
▴ 100
1
vote
6
replies
2.4k
views
May I use numreads for doing DGE after quantifying by Salmon
Salmon
DGE
updated 5.4 years ago by
WouterDeCoster
47k • written 5.5 years ago by
lkianmehr
▴ 100
0
votes
0
replies
865
views
How can I find functional role and interactions between differential expressed transcripts
RNA-Seq
transcript
ontology
ncRNA
5.5 years ago by
lkianmehr
▴ 100
2
votes
5
replies
5.2k
views
cause of unmapped short with STAR
STAR
RNA-Seq
updated 5.5 years ago by
swbarnes2
14k • written 5.5 years ago by
lkianmehr
▴ 100
4
votes
5
replies
1.9k
views
which package should be selected for differential gene expression analysis
Differential-gene-expression
RNA-Seq
updated 17 days ago by
Ram
43k • written 5.5 years ago by
lkianmehr
▴ 100
0
votes
3
replies
1.6k
views
How do transcript-level gene ontology
geneontology
transcript
5.5 years ago by
lkianmehr
▴ 100
3
votes
14
replies
3.6k
views
best pipeline to get gene and transcript counts
RNA-Seq
alignment
count
Hisat2
STAR
updated 5.5 years ago by
t.blasco95
▴ 30 • written 5.5 years ago by
lkianmehr
▴ 100
2
votes
2
replies
1.1k
views
how many index has to be constructed by STAR for TE analysis
TEToolkit
STAR
Index
updated 5.5 years ago by
h.mon
35k • written 5.5 years ago by
lkianmehr
▴ 100
5
votes
1
reply
1.9k
views
Quantifying repetitive elements in RNA-seqs
RNA-Seq
repetitive elements
quantification
updated 5.5 years ago by
Martombo
★ 3.1k • written 5.5 years ago by
lkianmehr
▴ 100
1
vote
3
replies
1.1k
views
Hisat2 alignment results can be ued for TEtoolkit analysis
Hisat2
TEtoolkit
updated 5.5 years ago by
h.mon
35k • written 5.5 years ago by
lkianmehr
▴ 100
3
votes
6
replies
4.1k
views
how do Differential gene expression analysis by Salmon output
differential-gene-expression
Salmon
updated 17 days ago by
Ram
43k • written 5.5 years ago by
lkianmehr
▴ 100
0
votes
1
reply
5.2k
views
how specify feature type in featureCounts
featureCounts
updated 5.6 years ago by
Matteo Schiavinato
★ 3.6k • written 5.6 years ago by
lkianmehr
▴ 100
4
votes
14
replies
2.3k
views
how merge the gene expression value of two sample
DESeq
RNA-Seq
gene-expression
updated 5.7 years ago by
GenoMax
141k • written 5.7 years ago by
lkianmehr
▴ 100
17
votes
9
replies
9.8k
views
6 follow
best way to visualize bam file
RNA-Seq
bam
visualize
updated 3 months ago by
e.r.zakiev
▴ 200 • written 5.7 years ago by
lkianmehr
▴ 100
5
votes
2
replies
3.6k
views
Convert Gene stable ID to Gene Symbol
gene
RNA-Seq
next-gen
updated 5.7 years ago by
finswimmer
16k • written 5.7 years ago by
lkianmehr
▴ 100
0
votes
9
replies
1.4k
views
comparision pairwise samples with DESeq2
DSEq2
RNA-Seq
updated 5.7 years ago by
h.mon
35k • written 5.7 years ago by
lkianmehr
▴ 100
5
votes
5
replies
3.9k
views
view Bowtie2 alignment results
Bowtie
alignment results
updated 5.8 years ago by
h.mon
35k • written 5.8 years ago by
lkianmehr
▴ 100
6
votes
6
replies
4.6k
views
install some bioinformatic sofwares without root
software
install
updated 5.8 years ago by
GenoMax
141k • written 5.8 years ago by
lkianmehr
▴ 100
1
vote
6
replies
1.7k
views
Mir-RNA analysis by RNA-seq data
RNA-Seq
mir-Seq
updated 5.8 years ago by
Biostar
20 • written 5.8 years ago by
lkianmehr
▴ 100
0
votes
3
replies
1.4k
views
count and compare microRNA expression value in RNA-Seq data on Galaxy
RNA-Seq
microRNA
DGE
fastq
galaxy
5.9 years ago by
lkianmehr
▴ 100
1
vote
1
reply
942
views
why genome format is unspecified in Galaxy server?
RNA-Seq
ftp
galaxy
updated 5.9 years ago by
Devon Ryan
104k • written 5.9 years ago by
lkianmehr
▴ 100
0
votes
5
replies
6.3k
views
visualizing the file with BigWig format
RNA-Seq
ucsc
visualize
BigWig
5.9 years ago by
lkianmehr
▴ 100
0
votes
1
reply
1.4k
views
how can I compare two samples of RNA-seq Generally
RNA-Seq
sequence
next-gen
compare
updated 6.0 years ago by
GouthamAtla
12k • written 6.0 years ago by
lkianmehr
▴ 100
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