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1
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4
replies
387
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How can I get the sequences of the first 20nt of introns and the last 250nt of introns of hg38 genome?
annotation RNA
updated 9 weeks ago by 8.6k • written 9 weeks ago by ▴ 140
9
votes
6
replies
801
views
Search a read by its name in a big fastq.gz file
NGS fastq
updated 4 months ago by 43k • written 4 months ago by ▴ 140
2
votes
1
reply
586
views
are transcripts in the Ensembl transcript release of human from certain cell types?
annotation RNA-seq
updated 9 months ago by ▴ 510 • written 9 months ago by ▴ 140
1
vote
2
replies
501
views
multi-mapping reads settings in Rsubread or Rsubjunc
Rsubjunc RNA-seq
11 months ago by xiaoleiusc ▴ 140
1
vote
5
replies
1.5k
views
Find a human mRNA transcript with specific dinucleotide frequencies close to user input values
Python RNA-seq R
updated 14 months ago by 43k • written 2.5 years ago by ▴ 140
2
votes
6
replies
1.6k
views
calculate nucleotides frequencies from mapped reads in a BAM file
RNA-seq
updated 2.5 years ago by 8.7k • written 2.5 years ago by ▴ 140
1
vote
0
replies
568
views
Is there a public database where I could download mRNA seq (transcriptome) data of 293T cells
RNA-seq Database Public
2.5 years ago by xiaoleiusc ▴ 140
1
vote
1
reply
669
views
BSgenomes for HIV viruses
CLIP-seq RNA-Seq CLIP-Seq
updated 2.7 years ago by 82k • written 2.7 years ago by ▴ 140
2
votes
2
replies
1.1k
views
tools for calculating nucleotide composition of a gene
NGS
3.0 years ago by xiaoleiusc ▴ 140
2
votes
6
replies
3.3k
views
convert DNA FASTA file to RNA FASTA file
RNA-Seq ChIP-Seq sequence
updated 3.2 years ago by 13k • written 3.2 years ago by ▴ 140
2
votes
2
replies
750
views
R error: could not find function "makeTxDbFromUCSC"
R RNA-Seq
3.2 years ago by xiaoleiusc ▴ 140
0
votes
2
replies
1.1k
views
HIV NL4-3 transcriptome fasta
rna-seq CLIP-seq
updated 3.2 years ago by • 0 • written 4.1 years ago by ▴ 140
3
votes
6
replies
3.5k
views
Bowtie alignment run too long and not finishing job
RNA-Seq ChIP-Seq
3.7 years ago by xiaoleiusc ▴ 140
0
votes
0
replies
646
views
Motif discovery of RNA binding proteins
CLIP-Seq RNA-Seq
3.7 years ago by xiaoleiusc ▴ 140
5
votes
7
replies
1.3k
views
Collapse mapped reads in sorted bam file based on the start and end position coordinates
rna-seq
updated 3.7 years ago by 142k • written 3.7 years ago by ▴ 140
5
votes
3
replies
806
views
base composition of human genome
genome
updated 3.7 years ago by 13k • written 3.7 years ago by ▴ 140
5
votes
7
replies
2.7k
views
IGV viewer could not display genome sequences correctly
RNA-Seq
updated 4.1 years ago by ▴ 300 • written 4.3 years ago by ▴ 140
3
votes
3
replies
1.1k
views
Why bowtie report same number of reads with different - k parameters?
RNA-Seq CLIP-seq
4.1 years ago by xiaoleiusc ▴ 140
2
votes
4
replies
964
views
filter out reads with specific properties from bam file
RNA-Seq CLIP-seq
updated 4.2 years ago by 161k • written 4.2 years ago by ▴ 140
2
votes
10
replies
2.9k
views
How to Check Per Base Sequence Content of a Fasta file
rna-seq
4.3 years ago by xiaoleiusc ▴ 140
0
votes
0
replies
844
views
How to set up quality filter which only applies to the 5' end of reads
RNA-Seq ChIP-Seq CLIP-seq
4.6 years ago by xiaoleiusc ▴ 140
2
votes
1
reply
1.8k
views
Set minimal reads length for Bowtie single-end alignment
RNA-Seq
4.7 years ago by xiaoleiusc ▴ 140
1
vote
1
reply
612
views
fastx_clipper run forever and never finish
RNA-Seq
4.7 years ago by xiaoleiusc ▴ 140
2
votes
8
replies
1.6k
views
PARalyzer error: * is not found in the .2bit file
CLIP-Seq
updated 4.8 years ago by 43k • written 4.8 years ago by ▴ 140
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