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1,000 results • Page
3 of 20
Sort: Votes
Rank
Views
Votes
Replies
10
votes
4
replies
1.4k
views
How to pipe samtools mileup with varscan trio caller?
varscan
samtools
pipe
3.3 years ago by
DareDevil
★ 4.3k
10
votes
2
replies
599
views
any script that can do this task
shell-script
updated 2.1 years ago by
Ram
43k • written 2.1 years ago by
Confused_human
▴ 20
10
votes
15
replies
1.8k
views
Can't find a variant which suppose must have in a vcf file
variant-calling
bcftools
nf-core
10 months ago by
Chris
▴ 260
10
votes
9
replies
2.0k
views
How to improve fastq quality based on fastqc output ?
RNA-Seq
5.9 years ago by
Angelique
▴ 10
10
votes
5
replies
5.6k
views
Intron Retention And Alternative 5'3' Splice Site Identification
updated 10.2 years ago by
Biostar
20 • written 13.0 years ago by
Arun
2.4k
10
votes
23
replies
2.4k
views
Two simillarly annotated sequence has no alignment similarity. Why?
blast
alignment
gene
updated 6.4 years ago by
GenoMax
141k • written 6.4 years ago by
Farbod
★ 3.4k
10
votes
12
replies
2.0k
views
The 2013 Eisenberg and Levanon housekeeping genes list for Human is the most updated one?
genes
human
housekeeping
list
5.2 years ago by
msimmer92
▴ 300
10
votes
10
replies
2.0k
views
Minor allele frequency
GWAS
SNPs
Alleles
updated 5.5 years ago by
Biostar
20 • written 7.4 years ago by
alessandrotestori7
▴ 420
10
votes
7
replies
1.2k
views
Can two mates have different file size?
sequencing
fastq
5.7 years ago by
marongiu.luigi
▴ 710
10
votes
13
replies
5.8k
views
How to identify DE lncRNA from RNA Seq Data?
RNA-Seq
lncrna
7.2 years ago by
Vasu
▴ 770
10
votes
2
replies
2.8k
views
Standalone Blast Issue
blast
11.9 years ago by
chlazaris
• 0
10
votes
6
replies
8.3k
views
Any idea how to solve this error in fgsea - "Error in if (any(simpleFgseaRes$modeFraction < 10)) { : missing value where TRUE/FALSE needed"?
fgsea
updated 2.8 years ago by
alserg
▴ 920 • written 2.8 years ago by
gabrielbaldanzi
▴ 10
9
votes
13
replies
3.4k
views
Python Script to map reads to reference sequence
sequence
python
mapping
script
reference sequence
5.0 years ago by
Fid_o
▴ 40
9
votes
5
replies
1.2k
views
how to retrieve all proteins related to cancer
proteins
7.9 years ago by
Learner
▴ 280
9
votes
7
replies
3.3k
views
Aligning Miseq With Deletions >10 Bases
alignment
miseq
next-gen
updated 10.8 years ago by
Biostar
20 • written 11.3 years ago by
Leszek
4.2k
9
votes
13
replies
1.6k
views
SNP's and Gene?
SNP
gene
4.5 years ago by
imgapgenomika
▴ 10
9
votes
10
replies
2.8k
views
About GATK4 Mutect2 runtime (Whole Exome seq)
GATK
Whole Exome Sequencing
Mutect2
3.3 years ago by
kwanghoon
▴ 20
9
votes
5
replies
3.9k
views
What's the interpretation behind Pathway enrichment analysis
networks
pathway enrichment analysis
gene
updated 6.6 years ago by
Biostar
20 • written 6.8 years ago by
Chaimaa
▴ 260
9
votes
16
replies
1.9k
views
feature extraction from SNPs in R
R
gene
sequence
SNP
5.5 years ago by
bioinfo456
▴ 150
9
votes
19
replies
2.3k
views
There are any way to use a script for feed emboss with fasta sequence?
sequence
4.3 years ago by
schlogl
▴ 160
9
votes
10
replies
1.9k
views
How to use Poisson distribution to get meaningful expression counts?
statistics
rna-seq
updated 2.8 years ago by
i.sudbery
19k • written 2.8 years ago by
c_u
▴ 520
9
votes
7
replies
2.7k
views
Averaging duplicates of a gene in RNA-Seq dataset
expression
differential
average
R
rna-seq
updated 2.8 years ago by
biomon
▴ 60 • written 2.8 years ago by
mohammedtoufiq91
▴ 250
9
votes
4
replies
5.5k
views
How to analyse normalized read count?
RNA-Seq
R
updated 15 months ago by
Ram
43k • written 8.9 years ago by
pbio
▴ 150
9
votes
13
replies
2.4k
views
Reannotating a gene: Identifying translation and transcription start sites
RNA-Seq
genome
gene
7.3 years ago by
rh5118
▴ 40
9
votes
13
replies
15k
views
Sort bam file by coordinates using samtools
next-gen-sequencing
gene
rna-seq
updated 10 months ago by
Ram
43k • written 5.6 years ago by
Shahzad
▴ 30
9
votes
11
replies
4.4k
views
please someone help me with running mirdeep2
software error
mirdeep2
perl
7.6 years ago by
zizigolu
★ 4.3k
9
votes
6
replies
1.3k
views
Genotype meaning
genotype
BL21
2.8 years ago by
A_heath
▴ 160
9
votes
4
replies
2.1k
views
[Code] Converte fasta/fa files to fastq
perl
fastq
sed
fasta
updated 20 months ago by
Ram
43k • written 8.4 years ago by
Shicheng Guo
★ 9.4k
9
votes
7
replies
1.1k
views
ChIP-seq; investigate binding within region of tRNA genes
tRNA
ChIP
nf-core
ChIP-seq
updated 23 months ago by
Ram
43k • written 2.0 years ago by
2138493o
▴ 20
9
votes
12
replies
1.5k
views
Copy number variations analysis
R
CNV
updated 4.4 years ago by
zx8754
11k • written 4.4 years ago by
rprog008
▴ 70
9
votes
3
replies
7.2k
views
Statistical Distributions In Rna-Seq Data Analysis
statistics
rna
updated 5.1 years ago by
Biostar
20 • written 12.1 years ago by
Ngsnewbie
▴ 380
9
votes
10
replies
5.5k
views
6 follow
Trimmomatic: Higher number of "forward only" than "reverse only" surviving reads
trimming
RNA-seq
updated 4.4 years ago by
nidhi.vijayan13
▴ 30 • written 5.7 years ago by
Lucila
▴ 20
9
votes
20
replies
4.3k
views
Solve SAM issues flagged by Picard's ValidateSamFile
Picard
SAM
updated 13 months ago by
Ram
43k • written 5.7 years ago by
marongiu.luigi
▴ 710
9
votes
9
replies
1.5k
views
Convert mouse amino acid location to genomic location
genome
gene
4.8 years ago by
L. A. Liggett
▴ 120
9
votes
13
replies
2.0k
views
Archeological DNA sample - how to analyze
unmapped
paleogenomics
archeogenomics
Assembly
2.3 years ago by
Aruna
▴ 30
9
votes
7
replies
1.3k
views
Reference genome location
reference
positions
FASTA
alignment
genome
updated 15 months ago by
barslmn
★ 2.1k • written 16 months ago by
Batel
• 0
9
votes
7
replies
2.4k
views
Merging BWT indices for BWA
BWA
BWT
read aligner
merge
5.5 years ago by
rgc255
▴ 60
9
votes
7
replies
5.4k
views
How to combine a different sources of pathway database (KEGG, BioCarta) for Pathway analysis.
Pathway
enrichment analysis
GWAS
pathway analysis
7.8 years ago by
kmsh410
▴ 40
9
votes
13
replies
2.9k
views
qRT-PCR data analysis steps and workflow
qRT-PCR
Reference genes
Normalization
DeltaCt
FC
5.2 years ago by
mohammedtoufiq91
▴ 250
9
votes
7
replies
5.6k
views
fisher test with multiple samples
statistics
updated 2.4 years ago by
Ram
43k • written 9.8 years ago by
juncheng
▴ 220
9
votes
14
replies
3.1k
views
vcf to xls wrong columns
vcf
7.7 years ago by
cristina_sabiers
▴ 110
9
votes
14
replies
4.3k
views
Explanation on Paired end single index for RNA seq
RNA-Seq
updated 2.1 years ago by
Ram
43k • written 9.3 years ago by
hothriananya
▴ 70
9
votes
11
replies
8.2k
views
8 follow
Extremely low mapping rates with bowtie2
alignment
next-gen
updated 6.5 years ago by
Biostar
20 • written 6.6 years ago by
Sachin
▴ 10
9
votes
1
reply
6.1k
views
Why does MACS2 report multiple records for the same peak region?
ChIP-Seq
macs
macs2
updated 20 months ago by
Ram
43k • written 8.5 years ago by
James Ashmore
★ 3.4k
9
votes
16
replies
3.8k
views
6 follow
covert SAM to full length fasta
fasta
SAM
updated 13 months ago by
Ram
43k • written 5.7 years ago by
marongiu.luigi
▴ 710
9
votes
11
replies
1.5k
views
6 follow
Split up excel cell into multiple records
excel
byonic
6.8 years ago by
rshipman
▴ 30
9
votes
12
replies
7.3k
views
How to align reads on reference using python?
genome
sequence
gene
sequencing
updated 5.4 years ago by
WouterDeCoster
47k • written 5.4 years ago by
doramora
▴ 10
9
votes
10
replies
2.5k
views
why there is 0/0 genotyp in VCF file?
VCF
GATK
Variant
4.7 years ago by
star
▴ 350
9
votes
11
replies
6.6k
views
microRNA Illumina Sequencing - Very low alignment rate
sequencing
Assembly
RNA-Seq
updated 2.3 years ago by
Ram
43k • written 9.7 years ago by
wynstep
▴ 90
9
votes
10
replies
3.4k
views
generation of heat map by excel data.
R
excel
heatmap
updated 5.8 years ago by
Ram
43k • written 5.9 years ago by
abhilashreddy495
▴ 10
1,000 results • Page
3 of 20
Recent Votes
Webinar “Learning Single-cell Atlases” with Dr. Fabian Theis, author of Scanpy on May 8
biomaRt external_gene_name same entry multiple times when mapping to homolog mouse gene
Converting between Ensembl Versions
Comment: what is the purpose of indexing the reference genome (Kallisto)
Answer: what is the purpose of indexing the reference genome (Kallisto)
Answer: How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
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Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
• 0
The command lines I wrote out for you are the ones I actually used. My original reference to bedtools intersect was because I assumed the b…
Comment: ScRNA data question
by
starswillfade
▴ 10
I just thought it was weird that considering each dot is a cell their expressions were all on a single line instead of being spread out lik…
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by
starswillfade
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![enter image description here][1] I am already using Seurat V5 I think. I am using SCTransform as it was recommended by the seurat page. I…
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by
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141k
Can you clarify what `metainfo` you are referring to? The accession that you refer to does exist in [**GenBank assembly_summary file**][1…
Comment: what is the purpose of indexing the reference genome (Kallisto)
by
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19k
Specifically: If we want to look up all the places where a 31mer is in a genome without and index, we have to compare that 31 to the first…
Answer: How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
by
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3.9k
This is way easier to do solely in R now 10 years later. library(GenomicFeatures) library(rtracklayer) ## import GTF…
Answer: what is the purpose of indexing the reference genome (Kallisto)
by
dsull
★ 5.8k
I'll see if I can explain things in super simple terms (albeit with some abuse of the actual technical details) to provide a conceptual und…
Answer: How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
by
Jalil Sharif
▴ 80
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Thank you LauferVA, Your advice has been useful and I now a lot to think about and read. Also, I just wanted to clarify I do not ha…
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by
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You cannot do it with Kallisto either. In fact, the indexation will fail in attempting to index a genome file
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by
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82k
What is your question? Add details and clarity. Ask a precise question and please avoid opening more questions on the same underlying issue…
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21k
If you have the accession numbers can you not use something like `eutils`?
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by
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161k
> Next, I tried using bedtools window but in your original post you said > tried finding the intersection of these bed files using bedto…
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Thank you very much! I tried it out! This is a handy tool useful for many different applications, and in regards to my problem - although …
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
• 0
Thank you for replying Pierre. I first added a third column to the SNP bed file, so that I would get a range of 1 for each SNP awk 'B…
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