Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : all time
all time
today
this week
this month
this year
1,000 results • Page
3 of 20
Sort: Votes
Rank
Views
Votes
Replies
10
votes
12
replies
1.7k
views
The 2013 Eisenberg and Levanon housekeeping genes list for Human is the most updated one?
genes
human
housekeeping
list
4.6 years ago by
msimmer92
▴ 300
10
votes
7
replies
1.0k
views
Can two mates have different file size?
sequencing
fastq
5.1 years ago by
marongiu.luigi
▴ 690
10
votes
19
replies
2.8k
views
What is a difference between uniprot and 'nr. Non-redundant GenBank...'?
Genebank
blast
UniProt
updated 2.4 years ago by
GenoMax
134k • written 2.4 years ago by
matt
▴ 20
10
votes
4
replies
1.2k
views
How to pipe samtools mileup with varscan trio caller?
varscan
samtools
pipe
2.7 years ago by
DareDevil
★ 3.3k
10
votes
10
replies
3.5k
views
Parameter optimization STAR
RNA-Seq
5.6 years ago by
XBria
▴ 90
10
votes
15
replies
1.3k
views
Can't find a variant which suppose must have in a vcf file
variant-calling
bcftools
nf-core
3 months ago by
Chris
▴ 180
9
votes
13
replies
3.0k
views
Python Script to map reads to reference sequence
sequence
python
mapping
script
reference sequence
4.4 years ago by
Fid_o
▴ 40
9
votes
5
replies
1.1k
views
how to retrieve all proteins related to cancer
proteins
7.4 years ago by
Learner
▴ 270
9
votes
7
replies
3.1k
views
Aligning Miseq With Deletions >10 Bases
alignment
miseq
next-gen
updated 10.2 years ago by
Biostar
20 • written 10.7 years ago by
Leszek
4.2k
9
votes
13
replies
1.4k
views
SNP's and Gene?
SNP
gene
3.9 years ago by
imgapgenomika
▴ 10
9
votes
13
replies
13k
views
Sort bam file by coordinates using samtools
next-gen-sequencing
gene
rna-seq
updated 3 months ago by
Ram
40k • written 5.0 years ago by
Shahzad
▴ 30
9
votes
6
replies
2.8k
views
Bug in JellyFish and DSK k-mer counting tool?
dsk
jellyfish
k-mer
6.8 years ago by
scchess
▴ 630
9
votes
16
replies
1.5k
views
feature extraction from SNPs in R
R
gene
sequence
SNP
4.9 years ago by
bioinfo456
▴ 150
9
votes
27
replies
6.7k
views
How do I use Glimmer 3.02?
sequencing
updated 4.7 years ago by
ojelizodun
• 0 • written 5.5 years ago by
nattzy94
▴ 50
9
votes
8
replies
1.5k
views
Union of unaligned fastq reads
RNA-Seq
6.3 years ago by
Jeffin Rockey
★ 1.2k
9
votes
10
replies
5.0k
views
6 follow
Trimmomatic: Higher number of "forward only" than "reverse only" surviving reads
trimming
RNA-seq
updated 3.9 years ago by
nidhi.vijayan13
▴ 30 • written 5.1 years ago by
Lucila
▴ 20
9
votes
19
replies
1.9k
views
There are any way to use a script for feed emboss with fasta sequence?
sequence
3.7 years ago by
schlogl
▴ 150
9
votes
11
replies
4.2k
views
please someone help me with running mirdeep2
software error
mirdeep2
perl
7.0 years ago by
fi1d18
★ 4.2k
9
votes
7
replies
868
views
ChIP-seq; investigate binding within region of tRNA genes
tRNA
ChIP
nf-core
ChIP-seq
updated 16 months ago by
Ram
40k • written 17 months ago by
2138493o
▴ 20
9
votes
4
replies
2.0k
views
[Code] Converte fasta/fa files to fastq
perl
fastq
sed
fasta
updated 13 months ago by
Ram
40k • written 7.9 years ago by
Shicheng Guo
★ 9.3k
9
votes
13
replies
2.2k
views
single tumor vs multiple normal sample differential gene expression (RNA-Seq ) analysis using DESeq2
RNA-Seq
DESeq2
updated 2.4 years ago by
Ram
40k • written 2.4 years ago by
sumitguptabt
▴ 30
9
votes
4
replies
22k
views
What is the definition of "read depth" vs "coverage"? (again...)
coverage
depth
read depth
6.4 years ago by
ariel.balter
▴ 210
9
votes
16
replies
3.3k
views
6 follow
covert SAM to full length fasta
fasta
SAM
updated 6 months ago by
Ram
40k • written 5.1 years ago by
marongiu.luigi
▴ 690
9
votes
2
replies
5.1k
views
Biopython Import Error
biopython
updated 11.3 years ago by
Michael Kuhn
5.0k • written 11.3 years ago by
angeles.sepulvedap
• 0
9
votes
10
replies
2.0k
views
[solved] Convert fold changes of multiple transcripts of a given gene to a single value characterising this gene
RNA-Seq
7.0 years ago by
biostart
▴ 370
9
votes
7
replies
5.3k
views
fisher test with multiple samples
statistics
updated 22 months ago by
Ram
40k • written 9.2 years ago by
juncheng
▴ 220
9
votes
13
replies
2.2k
views
Reannotating a gene: Identifying translation and transcription start sites
RNA-Seq
genome
gene
6.7 years ago by
rh5118
▴ 40
9
votes
16
replies
1.1k
views
I am trying to select some reference genome region of a bam file, but got an error
SAMTOOLS
updated 3.1 years ago by
lieven.sterck
14k • written 3.1 years ago by
schlogl
▴ 150
9
votes
6
replies
983
views
Genotype meaning
genotype
BL21
2.2 years ago by
A_heath
▴ 140
9
votes
4
replies
5.3k
views
How to analyse normalized read count?
RNA-Seq
R
updated 8 months ago by
Ram
40k • written 8.3 years ago by
pbio
▴ 150
9
votes
11
replies
7.4k
views
8 follow
Extremely low mapping rates with bowtie2
alignment
next-gen
updated 5.9 years ago by
Biostar
20 • written 6.0 years ago by
Sachin
▴ 10
9
votes
5
replies
3.3k
views
Which bias flags to run with Salmon before DESeq2 analysis?
RNA-Seq
Salmon
DESeq2
Bias Flags
4.2 years ago by
cameron.holman
▴ 20
9
votes
7
replies
3.4k
views
How to use Galaxy to obtain read counts from SRA files
Galaxy
read count
SRA file
7.0 years ago by
statfa
▴ 740
9
votes
7
replies
3.6k
views
7 follow
Are 2 replicates per sample sufficient for RNA-seq data analysis?
RNA-Seq
R
Ngs
5.6 years ago by
Arindam Ghosh
▴ 510
9
votes
10
replies
1.5k
views
How to use Poisson distribution to get meaningful expression counts?
statistics
rna-seq
updated 2.2 years ago by
i.sudbery
17k • written 2.2 years ago by
c_u
▴ 510
9
votes
14
replies
3.9k
views
Explanation on Paired end single index for RNA seq
RNA-Seq
updated 18 months ago by
Ram
40k • written 8.7 years ago by
hothriananya
▴ 70
9
votes
2
replies
454
views
Answer needed urgently
Deep
updated 12 months ago by
Mensur Dlakic
★ 24k • written 12 months ago by
Deepak
• 0
9
votes
7
replies
2.1k
views
Merging BWT indices for BWA
BWA
BWT
read aligner
merge
4.9 years ago by
rgc255
▴ 60
9
votes
10
replies
2.0k
views
why there is 0/0 genotyp in VCF file?
VCF
GATK
Variant
4.1 years ago by
star
▴ 350
9
votes
13
replies
2.4k
views
qRT-PCR data analysis steps and workflow
qRT-PCR
Reference genes
Normalization
DeltaCt
FC
4.6 years ago by
mohammedtoufiq91
▴ 230
9
votes
10
replies
3.1k
views
generation of heat map by excel data.
R
excel
heatmap
updated 5.2 years ago by
Ram
40k • written 5.3 years ago by
abhilashreddy495
▴ 10
9
votes
7
replies
1.9k
views
Sorting BLAST output files together?
blast
7.4 years ago by
zgayk
▴ 90
9
votes
7
replies
5.0k
views
How to combine a different sources of pathway database (KEGG, BioCarta) for Pathway analysis.
Pathway
enrichment analysis
GWAS
pathway analysis
7.3 years ago by
kmsh410
▴ 40
9
votes
7
replies
986
views
Reference genome location
reference
positions
FASTA
alignment
genome
updated 8 months ago by
barslmn
★ 1.8k • written 8 months ago by
Batel
• 0
9
votes
20
replies
3.6k
views
Solve SAM issues flagged by Picard's ValidateSamFile
Picard
SAM
updated 6 months ago by
Ram
40k • written 5.1 years ago by
marongiu.luigi
▴ 690
9
votes
5
replies
415
views
Prophage prediction tool
prophage
PHASTER
prediction
updated 9 weeks ago by
GenoMax
134k • written 9 weeks ago by
A_heath
▴ 140
9
votes
11
replies
1.3k
views
6 follow
Split up excel cell into multiple records
excel
byonic
6.2 years ago by
rshipman
▴ 30
9
votes
9
replies
4.1k
views
ATAC-seq TSS profile plot interpretation
ATAC-seq
TSS
V-plot
3.8 years ago by
nanoide
▴ 100
9
votes
4
replies
1.2k
views
Is there any method to run tophat ?
RNA-Seq
updated 5.0 years ago by
Biostar
20 • written 5.2 years ago by
Chan
• 0
9
votes
6
replies
3.2k
views
SOAPaligner 2.21 - does it replace all Ns by Gs in reads?
Soapaligner
alignment
updated 23 months ago by
Ram
40k • written 9.3 years ago by
Philipp Bayer
7.9k
1,000 results • Page
3 of 20
Recent Votes
Comment: Error in bowtie2
Recommended Tools For Alternative Splicing Detection From Rna-Seq Data
Comment: Using STAR aligner to build index of hg38
Answer: How to sort using samtools
The Biostar Handbook. A bioinformatics e-book for beginners.
The Biostar Handbook. A bioinformatics e-book for beginners.
A: How can I bin my bed files into 500bp bins?
Recent Locations •
All
France,
just now
Taiwan,
3 minutes ago
Australia,
6 minutes ago
United States,
9 minutes ago
France/Nantes/Institut du Thorax - INSERM UMR1087,
10 minutes ago
Russia,
14 minutes ago
Frankfurt Am Main,
18 minutes ago
Recent Awards •
All
Popular Question
to
langziv
▴ 50
Popular Question
to
Emily
▴ 30
Popular Question
to
Bogdan
★ 1.4k
Popular Question
to
paria
▴ 70
Popular Question
to
Ahmed.waraky
▴ 10
Teacher
to
fracarb8
★ 1.2k
Scholar
to
antonioggsousa
2.8k
Recent Replies
Comment: Hugo_Symbol to Entrez ID
by
GenoMax
134k
Can you provide some examples of HUGO ID's you are unable to convert?
Comment: Using STAR aligner to build index of hg38
by
GenoMax
134k
GTF file includes gene models/annotation information. You could also use a program like `salmon/kallisto` with just human transcriptome to…
Comment: Error: cannot open file 2 for reading From Cufflinks Version 2.2.1 When Attempti
by
Pierre Lindenbaum
157k
then test each files. find "${bam_directory}" -type f -name "*.bam" | xargs samtools quickcheck file "${reference_gen…
Answer: Ties in reranked list
by
alserg
▴ 840
The problem here is not the ties, but that your gene IDs in the pathway list (ensemble human genes) does not match the names of the stats v…
Comment: Error: cannot open file 2 for reading From Cufflinks Version 2.2.1 When Attempti
by
Y
• 0
I did not use the space between the `-u` flag and the `-o` flag (the blank line) but I did do what you recommended: # Run CuffDiff wit…
Answer: Error: cannot open file 2 for reading From Cufflinks Version 2.2.1 When Attempti
by
Pierre Lindenbaum
157k
how about simply trying: ``` cuffdiff -u "${annotation_gtf}" \ -o "${output_directory}" \ -b "${reference_genome}" \ -p "${num_th…
Comment: Using STAR aligner to build index of hg38
by
Grace
• 0
Yes, I know also need a GTF file. So the GTF file will include RNA information? Thanks for your answer!!
Comment: STAR Intron Motif Script Gives Segmentation fault Error
by
Y
• 0
I will try and figure it out on my own given what you all have mentioned. Thank you for your time.
Comment: Using STAR aligner to build index of hg38
by
Amitm
★ 2.2k
Have you gone through the manual [here][1]. In addition to the genome fasta file, you would also need a GTF file (of gene annotations) to b…
Comment: Highly inflated p-values in GWAS by regenie
by
4galaxy77
2.8k
You still definitely need to include principle components as covariates, even if your data is from the same ethnicity. Not including those …
Answer: How to create structural variants ground truth for alignment of two long-read ge
by
Christophe
• 0
Hi, D-genies is using minimap2 to align both genomes and minimap2 is chaining local alignments to produce a global one. If the SV are sm…
Comment: Ties in reranked list
by
Hamza
• 0
In this case there are no results in my fgsea object unfortunately
Comment: Genes with promoter and enhancer regions as GTF
by
abis.1819104
• 0
how to generate promoters.bed and enhancer.bed files from gtf file
Comment: Deepvariant variant calling by singularity
by
jeffhsu3
• 0
I am having a similar issue was this ever resolved? Getting this error: I0922 22:22:08.794076 140356687390528 make_examples_core.py:257] O…
Comment: Modify the code to take most abundant reads from a cluster and process it.
by
Mensur Dlakic
★ 24k
Probably there are people here for whom this is a trivial task, and maybe you will luck out and one of them will write a solution for you. …
Traffic: 4325 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6