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1
vote
8
replies
1.0k
views
Reads in IGV are mostly in intron regions
Patchseq RNA-seq
10 months ago by Kai_Qi ▴ 130
1
vote
1
reply
869
views
Software/packages for analyzing differential isoforms from RNA-seq data?
RNA-Seq next-gen-sequencing
updated 22 months ago by 43k • written 3.5 years ago by ▴ 130
1
vote
4
replies
1.6k
views
Can't load reference sequence from file 'GRCh37.fa': Unexpected character 'M' found.
next-gen-sequencing RNA-Seq
updated 2.2 years ago by 43k • written 3.5 years ago by ▴ 130
2
votes
3
replies
1.1k
views
Get upstream and downstream exon's starting site and ending site of an retained introns
RNAseq
updated 2.9 years ago by 82k • written 2.9 years ago by ▴ 130
4
votes
5
replies
2.0k
views
how to understand the P value of the Deseq2 results
statistics p_value DEseq2
updated 3.1 years ago by ★ 2.6k • written 3.1 years ago by ▴ 130
8
votes
4
replies
2.6k
views
gzip: merged.fastq.gz not in gzip format
RNAseq
3.1 years ago by Kai_Qi ▴ 130
2
votes
3
replies
1.1k
views
gencode gtf file derived geneID can't be annotated to gene symbol following Deseq2 manual
R RNA-Seq gene
3.2 years ago by Kai_Qi ▴ 130
2
votes
3
replies
929
views
MEME cannot handle 318 sequence?
RNA-Seq ChIP-Seq rna-seq genome sequencing
updated 3.4 years ago by 35k • written 3.4 years ago by ▴ 130
1
vote
1
reply
719
views
how to do GeneOntology in R using DAVID or other packages to recommed?
RNA-Seq R rna-seq gene
3.4 years ago by Kai_Qi ▴ 130
1
vote
1
reply
1.2k
views
Linear regression of the RNAseq results to get the genes whose expression change belong to the same trends
RNA-Seq R rna-seq sequencing
updated 3.4 years ago by ▴ 160 • written 3.4 years ago by ▴ 130
1
vote
3
replies
1.5k
views
Deseq2: time series in 1 condition. Error in nbinomLRT(object, full = full, reduced = reduced, quiet = quiet
R RNA-Seq next-gen sequencing
3.4 years ago by Kai_Qi ▴ 130
1
vote
3
replies
746
views
Removing ">" before coordinates and separate the coordinates in a single string format into a bed file
rna-seq gene next-gen sequence
3.4 years ago by Kai_Qi ▴ 130
2
votes
2
replies
589
views
Header of first sequence is missing after grep
rna-seq RNA-Seq sequencing next-gen gene
updated 3.4 years ago by 161k • written 3.4 years ago by ▴ 130
3
votes
4
replies
1.8k
views
ls: cannot access *.filter.trim.fastq.gz: No such file or directory (problems when combining individual steps into a full script)
RNA-Seq rna-seq sequencing sequence
updated 3.4 years ago by 43k • written 3.4 years ago by ▴ 130
1
vote
6
replies
885
views
how to get the geneNames or bedfile from fasta sequences
RNA-Seq genome gene ChIP-Seq
updated 3.5 years ago by ▴ 140 • written 3.5 years ago by ▴ 130
0
votes
2
replies
1.5k
views
9th column of the GTF file is exon_id instead of gene_id, is this normal?
RNA-Seq alignment sequencing
3.5 years ago by Kai_Qi ▴ 130
1
vote
3
replies
825
views
will the bam files mapped from Ensembl index be ok to do featurecount with mm10
RNA-Seq rna-seq alignment sequence
3.5 years ago by Kai_Qi ▴ 130
6
votes
2
replies
1.1k
views
samtools index cannot index concatenated bam?
alignment rna-seq RNA-Seq next-gen
updated 3.5 years ago by 14k • written 3.5 years ago by ▴ 130
0
votes
0
replies
603
views
How to visulize bed6 file generated from Pureclip analysis
RNA-Seq rna-seq sequencing next-gen
3.5 years ago by Kai_Qi ▴ 130
0
votes
1
reply
1.4k
views
using macs2 to call peaks on eCLIP-seq data
rna-seq RNA-Seq ChIP-Seq
3.5 years ago by Kai_Qi ▴ 130
0
votes
0
replies
1.1k
views
Filtering uniquely mapping reads from bam files generated from STAR
rna-seq RNA-Seq ChIP-Seq next-gen
3.5 years ago by Kai_Qi ▴ 130
3
votes
7
replies
1.4k
views
intron/exon coordinates location: 5UTR/CDS/3UTR
RNA-Seq rna-seq sequencing next-gen
updated 3.7 years ago by 20 • written 3.9 years ago by ▴ 130
5
votes
11
replies
2.0k
views
sbacth on multiple fastq files sequentially
RNA-Seq STAR alignment rna-seq
3.7 years ago by Kai_Qi ▴ 130
3
votes
12
replies
2.2k
views
difficulties in merge multiple txt files from Rsubread feature counts to DESEQ2
R RNA-Seq rna-seq DEseq2
3.8 years ago by Kai_Qi ▴ 130
2
votes
2
replies
4.0k
views
error in hcluster although there is no NA/NAN/infinite
R Heatmap clustering
updated 3.8 years ago by 27k • written 3.8 years ago by ▴ 130
2
votes
1
reply
1.1k
views
MaxEntScan for mouse 5/3 splice site
RNA-Seq genome RNA-splice MaxEntScan
3.9 years ago by Kai_Qi ▴ 130
0
votes
0
replies
856
views
intersect between introns and the UTR/CDS bed files
genome gtf bed gene RNA-Seq
3.9 years ago by Kai_Qi ▴ 130
0
votes
0
replies
796
views
Bedtools intersect gives empty files
rna-seq sequencing genome gene
3.9 years ago by Kai_Qi ▴ 130
0
votes
0
replies
654
views
comparison among the accumulation density curves
R software error
3.9 years ago by Kai_Qi ▴ 130
4
votes
1
reply
1.2k
views
Barplot labeling squeezed the bars
R
updated 3.9 years ago by ★ 1.4k • written 3.9 years ago by ▴ 130
2
votes
8
replies
692
views
make a vector containing several vectors in to a single one
R
3.9 years ago by Kai_Qi ▴ 130
1
vote
5
replies
699
views
2 stages of GeneOntology in the same figure
R next-gen gene
updated 3.9 years ago by ★ 16k • written 3.9 years ago by ▴ 130
4
votes
9
replies
1.2k
views
barplot is missing in png file after saving
RNA-Seq R software error next-gen gene
updated 3.9 years ago by 20 • written 4.0 years ago by ▴ 130
6
votes
13
replies
3.2k
views
How to modify my sbatch script to make it be able to be used for other files
RNA-Seq next-gen alignment
3.9 years ago by Kai_Qi ▴ 130
6
votes
6
replies
915
views
Boxplot or ggplot
R software error RNA-Seq sequencing
updated 4.0 years ago by ★ 1.4k • written 4.0 years ago by ▴ 130
1
vote
1
reply
2.1k
views
custom cluster or split heatmap?
R software error RNA-Seq
updated 4.0 years ago by 43k • written 4.0 years ago by ▴ 130
3
votes
3
replies
1.7k
views
error in reorder the bars of ggplots
RNA-Seq R rna-seq software error
4.0 years ago by Kai_Qi ▴ 130
4
votes
8
replies
2.0k
views
DESEQ2 on R cannot be installed on server
R RNA-Seq software error rna-seq sequencing
updated 4.0 years ago by 43k • written 4.0 years ago by ▴ 130
4
votes
11
replies
1.3k
views
using heat map to measure gene expression at different developmental stages
RNA-Seq R rna-seq next-gen
4.0 years ago by Kai_Qi ▴ 130
1
vote
3
replies
1.5k
views
How to use FIMO to find a motif among sequences?
RNA-Seq rna-seq software error sequencing
updated 4.0 years ago by 35k • written 4.0 years ago by ▴ 130
5
votes
16
replies
2.0k
views
MEME calling motifs from eCLIP-seq file generate no information
software-error RNA-Seq next-gen ChIP-Seq
updated 11 months ago by 43k • written 4.1 years ago by ▴ 130
0
votes
0
replies
979
views
argument not recognizable cutadapt
RNA-Seq software error
updated 4.1 years ago by 82k • written 4.1 years ago by ▴ 130
0
votes
1
reply
831
views
PureClip to analyze CLIP-SEQ
sequencing RNA-Seq
updated 4.1 years ago by 142k • written 4.1 years ago by ▴ 130
2
votes
5
replies
1.1k
views
Packages in R for analyze premature stop codon and GC contents
R RNA-Seq
updated 4.5 years ago by ★ 4.1k • written 4.5 years ago by ▴ 130
0
votes
0
replies
703
views
binomial test questions on determine the intron retention from reads on #E1I, #I and #IE2
RNA-Seq R
4.6 years ago by Kai_Qi ▴ 130
1
vote
7
replies
2.1k
views
Failed to install package(ASpli) in R
R software error RNA-Seq
4.6 years ago by Kai_Qi ▴ 130
9
votes
20
replies
2.9k
views
Differential gene expression from 1 replicate using RPKM and edgeR
RNA-Seq R
updated 4.6 years ago by 19k • written 4.6 years ago by ▴ 130
1
vote
2
replies
1.7k
views
binomtest In R
R RNA-Seq
4.7 years ago by Kai_Qi ▴ 130
5
votes
4
replies
901
views
What does gene coordinates "CHR_MG117_PATCH:108783796-108806337"mean?
RNA-Seq genome
updated 4.7 years ago by 142k • written 4.7 years ago by ▴ 130
6
votes
4
replies
3.3k
views
Get a bunch of ENTREZID into gene symbols
R gene RNA-Seq
updated 4.8 years ago by ▴ 700 • written 4.8 years ago by ▴ 130
53 results • Page 1 of 2
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