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21
votes
9
replies
28k
views
7 follow
Saving plots in R
ggplot R
updated 2.5 years ago by ▴ 90 • written 6.2 years ago by ▴ 590
13
votes
4
replies
4.9k
views
Quantile (Limma-voom) normalization
RNA-Seq voom
updated 13 months ago by 43k • written 6.6 years ago by ▴ 590
6
votes
9
replies
4.7k
views
GMAP aligner issues
gmap aligner RNA-Seq
updated 4.5 years ago by 15k • written 6.5 years ago by ▴ 590
0
votes
6
replies
2.4k
views
Error while using EdgeR
edgeR
updated 5.1 years ago by ★ 7.0k • written 6.1 years ago by ▴ 590
2
votes
2
replies
2.8k
views
How to decide Gap/mismatch penalties ?
bowtie2 gap-penalty
updated 13 months ago by 43k • written 6.7 years ago by ▴ 590
19
votes
15
replies
12k
views
9 follow
how to make a .tbi file of .gtf.gz?
tbi index
updated 13 months ago by ▴ 30 • written 6.4 years ago by ▴ 590
13
votes
12
replies
16k
views
6 follow
Calculate length of sequences from fasta file
fasta
updated 5.7 years ago by 20 • written 6.4 years ago by ▴ 590
2
votes
4
replies
27k
views
Changing the legend names: R
R ggplot2
updated 6.0 years ago by 87k • written 6.1 years ago by ▴ 590
2
votes
3
replies
2.0k
views
Bioconductor: quantile normalization
normalization biocinductor
updated 6.1 years ago by ▴ 320 • written 6.1 years ago by ▴ 590
5
votes
2
replies
2.7k
views
Extracting longest read from fastq file
fastq
updated 6.1 years ago by 161k • written 6.1 years ago by ▴ 590
1
vote
2
replies
1.7k
views
error using porechop on nanopore reads
porechop nanopore
6.2 years ago by KVC_bioinfo ▴ 590
0
votes
0
replies
1.9k
views
aligner for 1D^2 oxford nanopore data
1D^2 nanopore minimap2
6.2 years ago by KVC_bioinfo ▴ 590
3
votes
2
replies
2.8k
views
extract all the cigar sequences
cigar
updated 6.2 years ago by ★ 2.8k • written 6.2 years ago by ▴ 590
4
votes
2
replies
3.0k
views
cutadapt vs porechop
cutadapt porechop nanopore 1d^2
updated 6.2 years ago by 47k • written 6.2 years ago by ▴ 590
2
votes
7
replies
2.0k
views
Difficult using Nanoplot
nanoplot ONT
6.2 years ago by KVC_bioinfo ▴ 590
3
votes
4
replies
1.6k
views
1D^2: Oxford nanopre technology
ONT 1d2
6.2 years ago by KVC_bioinfo ▴ 590
18
votes
11
replies
17k
views
Quantile Normalization in R
normalization quantile R Bioconductor
updated 6.2 years ago by 20 • written 6.2 years ago by ▴ 590
5
votes
5
replies
4.5k
views
Total counts(TC) normalization by R
totalcount normalization RNA-seq
6.2 years ago by KVC_bioinfo ▴ 590
2
votes
3
replies
1.6k
views
Bioconductor package NOISeq: Normalization
bioconductor normalization
updated 6.2 years ago by 87k • written 6.2 years ago by ▴ 590
5
votes
9
replies
9.3k
views
Quartile Normalization in R : RNA-seq
quartile normalization R LPE RNA-Seq
6.2 years ago by KVC_bioinfo ▴ 590
0
votes
4
replies
1.6k
views
How to command python to continue beyond the loop?
python
6.4 years ago by KVC_bioinfo ▴ 590
3
votes
17
replies
2.7k
views
Difficulty in python while loop
python whileloop
6.4 years ago by KVC_bioinfo ▴ 590
1
vote
2
replies
1.1k
views
Downloading gene model for GRCh37
genemodel ncbi
6.4 years ago by KVC_bioinfo ▴ 590
6
votes
9
replies
1.7k
views
Multiple looping in python
python
updated 6.4 years ago by ▴ 990 • written 6.4 years ago by ▴ 590
5
votes
6
replies
9.5k
views
iterating through list of tuples #python
python
updated 6.4 years ago by 5.8k • written 6.4 years ago by ▴ 590
2
votes
2
replies
3.2k
views
Getting genomic locations from cigar string
cigar python
6.4 years ago by KVC_bioinfo ▴ 590
14
votes
16
replies
7.0k
views
extracting mapped reads from the bam file
mapped
updated 6.4 years ago by 104k • written 6.4 years ago by ▴ 590
6
votes
2
replies
7.8k
views
Understanding SAM file format
sam
updated 6.4 years ago by 161k • written 6.4 years ago by ▴ 590
4
votes
7
replies
2.7k
views
Loading genome on IGV
igv
updated 6.4 years ago by ▴ 990 • written 6.4 years ago by ▴ 590
4
votes
3
replies
2.5k
views
Extracting reads from given region
bam
updated 6.4 years ago by 161k • written 6.4 years ago by ▴ 590
3
votes
7
replies
2.9k
views
GRCh37/hg19 human genome sequences from NCBI
ncbi hg19
updated 6.4 years ago by 27k • written 6.4 years ago by ▴ 590
7
votes
9
replies
4.6k
views
Alignment in IGV: extracting specific reads.
iGV samtools
6.4 years ago by KVC_bioinfo ▴ 590
7
votes
10
replies
4.2k
views
extracting reads from sam/bam file
bam sam
updated 6.4 years ago by 161k • written 6.4 years ago by ▴ 590
3
votes
15
replies
2.2k
views
looking for alignment in IGV
igv alignment
updated 6.4 years ago by ★ 1.5k • written 6.4 years ago by ▴ 590
2
votes
6
replies
2.9k
views
extracting reads from bam file
bam fasta samtools
6.4 years ago by KVC_bioinfo ▴ 590
8
votes
8
replies
6.1k
views
Extract reads from fasta file (specific read_names)and make a new fasta file
fasta
updated 6.4 years ago by ★ 3.0k • written 6.4 years ago by ▴ 590
1
vote
5
replies
3.9k
views
Minimap2 algorithm : seed-chain-align
minimap2 aligner ONT
6.4 years ago by KVC_bioinfo ▴ 590
3
votes
8
replies
4.9k
views
Minimap2 warning message
minimap2 aligner ont
6.4 years ago by KVC_bioinfo ▴ 590
6
votes
7
replies
2.0k
views
Looking for publicly available dataset.
dataset public
updated 6.4 years ago by ★ 1.9k • written 6.4 years ago by ▴ 590
5
votes
12
replies
2.4k
views
Gmap aligner taking too long
gmap aligner
6.4 years ago by KVC_bioinfo ▴ 590
6
votes
7
replies
2.9k
views
error while using cutadapt
cutadapt trim
updated 6.5 years ago by ★ 2.5k • written 6.5 years ago by ▴ 590
7
votes
9
replies
7.6k
views
trimming nano pore reads based on quality score.
nanopore trim
updated 6.5 years ago by 47k • written 6.5 years ago by ▴ 590
7
votes
9
replies
11k
views
Adapters fro nano pore sequence
nanopore adaptor
6.5 years ago by KVC_bioinfo ▴ 590
3
votes
3
replies
3.3k
views
Removing adapters from Oxford nano pore reads
adaptors nanopore ONT
updated 6.5 years ago by 47k • written 6.5 years ago by ▴ 590
0
votes
1
reply
978
views
GMAP: Minimal Sampling stratergy
gmap ngs aligner
updated 6.5 years ago by 47k • written 6.5 years ago by ▴ 590
8
votes
11
replies
8.4k
views
Human transcriptome download
RNA-Seq transcriptome
updated 13 months ago by 43k • written 6.6 years ago by ▴ 590
6
votes
5
replies
3.1k
views
Which package to be used for RNA-seq normalization(Limma-voom)
RNA-Seq limma voom
updated 13 months ago by 43k • written 6.5 years ago by ▴ 590
0
votes
1
reply
1.5k
views
Viral integration studies using RNA-seq data
virus RNA-seq
updated 13 months ago by 43k • written 6.5 years ago by ▴ 590
0
votes
2
replies
1.3k
views
VirusClip script Virus_clip.sh
RNA-seq virusclip
updated 13 months ago by 43k • written 6.5 years ago by ▴ 590
1
vote
2
replies
1.3k
views
Viral integration analysis
virusfinder RNA-Seq virus-clip
updated 13 months ago by 43k • written 6.6 years ago by ▴ 590
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