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 : this month
all time
today
this week
this month
this year
840 results • Page
3 of 17
Sort: Votes
Rank
Views
Votes
Replies
5
votes
12
replies
754
views
6 follow
Formatting RNA-Seq Data for Kruskal Wallis Test on R
R
Kruskal-Wallis
RNA-seq
updated 26 days ago by
swbarnes2
13k • written 27 days ago by
eco2249
• 0
5
votes
2
replies
2.4k
views
CWL: Comments in Common Workflow Language
Common-Workflow-Language
cwl
updated 9 days ago by
Ram
40k • written 6.4 years ago by
kevin.o.oluoch
▴ 70
5
votes
8
replies
389
views
Quantify the number of sequences in common paired-end sequencing data
fastq
paired-end
updated 5 days ago by
Ram
40k • written 5 days ago by
sperezilvia
• 0
5
votes
8
replies
1.9k
views
Distinguish between forward strand, plus strand, sense strand
pysam
strand
star
sam
updated 17 days ago by
Buwei
• 0 • written 14 months ago by
tien
▴ 10
5
votes
4
replies
493
views
6 follow
How to delete part of row names in a list in linux
Linux
updated 12 days ago by
Ram
40k • written 13 days ago by
Mousumi Akter
• 0
5
votes
4
replies
726
views
Primer designing for full length gene amplification
gene-amplification
primer-design
offtopic
updated 1 day ago by
Ram
40k • written 15 months ago by
Fizzah
▴ 30
5
votes
2
replies
337
views
How to calculate GC content of reads that mapped to a specific gene?
STAR
RNA-seq
15 days ago by
bioinfo
▴ 110
5
votes
4
replies
2.7k
views
Distance Tree For Gerp
conservation
phylogeny
updated 7 days ago by
Diana
• 0 • written 11.6 years ago by
Darked89
4.4k
5
votes
7
replies
511
views
Can one sample t.test be used to determine statistical significance for log2FC values?
log2FC
T.test
updated 21 days ago by
dsull
★ 4.6k • written 22 days ago by
aUser
▴ 30
5
votes
10
replies
747
views
the distribution of log2Fc and t value are not similar for bulk RNA-seq
decoupleR
RNA-seq
27 days ago by
alwayshope
▴ 30
5
votes
4
replies
639
views
Alternative splicing events
Leafcutter
leafviz
Splicing
events
29 days ago by
Ezhil La
▴ 30
4
votes
6
replies
2.6k
views
IDT vs primer 3 - PCR dimerisation
PCR
primer3
IDT
primer
updated 6 days ago by
Emrah
• 0 • written 3.1 years ago by
timothy.kirkwood
▴ 130
4
votes
2
replies
289
views
samtools ampliconclip option --strand is not working?
samtools
ampliconclip
13 days ago by
ManuelDB
▴ 70
4
votes
3
replies
970
views
INSTALLING DEseq2 via conda
DEseq2
conda
RNA-seq
updated 1 day ago by
Ram
40k • written 3 months ago by
Fizzah
▴ 30
4
votes
3
replies
310
views
Fetch genomic region(s) from refseq genomes
ensembl
updated 24 days ago by
GenoMax
134k • written 24 days ago by
usr2
▴ 10
4
votes
3
replies
623
views
News:
You may need to cleanup duplicate NCBI BLAST nt database volumes on your system
databases
NCBI
BLAST
26 days ago by
PeterC_NCBI
▴ 320
4
votes
5
replies
407
views
Recapitulating a GenomeBrowser-style plot
IGV
genome-browser
25 days ago by
LChart
3.3k
4
votes
7
replies
494
views
How is the format of the bed file for samtools ampliconclip
samtools
ampliconclip
updated 15 days ago by
aw7
▴ 210 • written 19 days ago by
ManuelDB
▴ 70
4
votes
12
replies
3.4k
views
6 follow
Sort gff3 on chromosome, position and then featuretype (gene, mRNA, exon, CDS)
gff3
updated 8 days ago by
alejandrogzi
▴ 30 • written 3.4 years ago by
William
★ 5.2k
4
votes
12
replies
792
views
bedops alternative for bedtools -unionbedg ?
bedtools
bam
coverage
bedops
bed
updated 5 days ago by
Alex Reynolds
35k • written 21 days ago by
Agastya
▴ 10
4
votes
5
replies
533
views
Help with error scanpy
scanpy
7 days ago by
Chris
▴ 180
4
votes
8
replies
675
views
SRA-toolkit installation: "fastq-dump not found"
fastq
SRA-toolkit
updated 12 days ago by
river
• 0 • written 11 weeks ago by
BioGuy
• 0
4
votes
5
replies
887
views
tranfering sam file easy and fast way
SAM
RNA-seq
hisat2
updated 26 days ago by
Ram
40k • written 20 months ago by
iamsmor
• 0
4
votes
2
replies
232
views
News:
Standalone NCBI ClusteredNR database now available for download
ClusteredNR
NCBI
standalone
BLAST
15 days ago by
PeterC_NCBI
▴ 320
4
votes
11
replies
578
views
Trimming of reads in miRNA-Seq data
miRNA-Seq
Trimming
updated 27 days ago by
Trivas
★ 1.4k • written 29 days ago by
Ezhil La
▴ 30
4
votes
10
replies
689
views
Check Strandedness
Check_Strandedness
how_are_we_stranded_here
leafcutter
bash
28 days ago by
Y
• 0
4
votes
8
replies
5.3k
views
Convert bed12 to GFF
bed
gff
bed12
updated 20 days ago by
Juke34
8.2k • written 6.6 years ago by
cmdcolin
★ 3.2k
4
votes
4
replies
660
views
What is the common practice to view WGS data on IGV?
IGV
WGS
updated 27 days ago by
liorglic
★ 1.2k • written 28 days ago by
chictu
▴ 10
4
votes
4
replies
410
views
Feedback on mouse brain scRNA-seq quality control
mouse
brain
singe-cell
scRNAseq
quality-control
27 days ago by
nshenoy
▴ 50
4
votes
7
replies
536
views
Help with Error: None of the requested features were found: PECAM1 in slot data
seurat
multiome
21 days ago by
Chris
▴ 180
4
votes
2
replies
262
views
RNA-seq analysis with contigs instead of an assembled genome
rna-seq
updated 28 days ago by
dthorbur
▴ 550 • written 28 days ago by
langziv
▴ 50
4
votes
3
replies
296
views
homer motif search
motif-search
HOMER
updated 28 days ago by
Ram
40k • written 29 days ago by
qudrat.nii
• 0
4
votes
9
replies
704
views
Which minimap2 parameters to set while performing mapping to avoid such mismatches
minimap2
18 days ago by
Mohd
▴ 40
4
votes
8
replies
507
views
Error executing nf-core/metaboigniter pipeline
nf-core
metaboigniter
nextflow
updated 29 days ago by
Phil Ewels
★ 1.3k • written 4 weeks ago by
eesha28112001
• 0
4
votes
2
replies
2.3k
views
Tutorial:
Building mosdepth on macOS
nim
mosdepth
updated 15 days ago by
GenoMax
134k • written 3.4 years ago by
ATpoint
76k
4
votes
3
replies
372
views
Creating custom GTF file for use with Cellranger with barcode sequences
Cellranger
19 days ago by
stefano.iantorno
▴ 70
4
votes
7
replies
484
views
Help with weighted nearest neighbor analysis
seurat
single-cell
28 days ago by
Chris
▴ 180
4
votes
0
replies
146
views
Herald:
The Biostar Herald for Wednesday, September 06, 2023
herald
14 days ago by
Biostar
2.0k
4
votes
3
replies
487
views
interpreting results from pathway analysis
RNA-seq
kegg
clusterprofiler
GSEA
pathway-analysis
updated 13 days ago by
Ram
40k • written 10 weeks ago by
kng
▴ 30
4
votes
5
replies
447
views
Pre-processing for single cell RNAseq: Hard thresholds, data (cluster)-driven or both?
scRNA-seq
3 days ago by
psm
▴ 100
4
votes
5
replies
332
views
SRA and Bioproject IDs
Bioproject
GEO
SRA
updated 23 days ago by
GenoMax
134k • written 23 days ago by
mrashad
▴ 70
4
votes
5
replies
738
views
Getting Intron Positions from Amino Acid Sequences
acid
positions
amino
sequences
intron
12 days ago by
fafad046
• 0
4
votes
1
reply
1.9k
views
How to convert File to array of File? Type mismatch between source and sink, File to array
Common-Workflow-Language
cwl
updated 9 days ago by
Ram
40k • written 6.9 years ago by
karl.nordstrom
▴ 90
4
votes
4
replies
360
views
One sample has quite different # of reads from different lanes.
demultiplexing
illumina
fastq
27 days ago by
jkim
▴ 140
4
votes
3
replies
225
views
Batch effect consideration (re-seq the same sample twice)
RNA-seq
batch-effect
updated 2 days ago by
Ram
40k • written 2 days ago by
jkim
▴ 140
4
votes
2
replies
277
views
Normalisation on subset of genes
genechip
RNA-Seq
differential-expression
updated 15 days ago by
ATpoint
76k • written 15 days ago by
Mia
▴ 20
4
votes
4
replies
8.6k
views
MaxEntScan score interpretation
splice-scores
MaxEntScan
updated 10 days ago by
Akshita
• 0 • written 4.6 years ago by
ga87mit
▴ 20
4
votes
1
reply
329
views
Herald:
The Biostar Herald for Monday, August 28, 2023
herald
updated 22 days ago by
Jesse
▴ 720 • written 23 days ago by
Biostar
2.0k
3
votes
3
replies
286
views
How to find variants in a specific gene in a cohort of 500k+ individuals?
variants
plink
SNPs
CNV
updated 15 days ago by
Pierre Lindenbaum
156k • written 15 days ago by
_quantum_girl_
▴ 10
3
votes
2
replies
207
views
HISAT2 Error
HISAT2
updated 10 days ago by
GenoMax
134k • written 10 days ago by
SHXVRR
▴ 20
840 results • Page
3 of 17
Recent Votes
C: bowtie2 piped to samtools created many samtools.tmp.bam files, how to get the si
What is the difference between norm --multiallelics -any versus --atomize?
Answer: What is the difference between norm --multiallelics -any versus --atomize?
A: How To Extract A Sequence From A Big (6Gb) Multifasta File ?
A: How to extract a sequence below a fasta header (">") from a fasta file ?
A: How to extract a sequence below a fasta header (">") from a fasta file ?
A: How To Extract A Sequence From A Big (6Gb) Multifasta File ?
Recent Locations •
All
Geneva,
2 minutes ago
Tel Aviv,
3 minutes ago
India,
4 minutes ago
France,
5 minutes ago
Galway, Ireland,
6 minutes ago
Denmark,
7 minutes ago
Russia,
8 minutes ago
Recent Awards •
All
Popular Question
to
zx8754
11k
Popular Question
to
xiaoguang
▴ 120
Popular Question
to
luffy
▴ 30
Teacher
to
swbarnes2
13k
Popular Question
to
blz
▴ 10
Popular Question
to
Ram
40k
Popular Question
to
mohammadhassanj
▴ 260
Recent Replies
Answer: Identifying common DEGs among multiple datasets
by
Barry Digby
★ 1.2k
Return a vector of common DEGs ```R dataset1 <- read.csv("dataset1.csv", header=T) dataset2 <- read.csv("dataset2.csv", header=T) h…
Comment: Dealing with transcriptome sequences that are smaller than their respective gene
by
langziv
▴ 50
If it's difficult to tell from RNA-seq data, what other approaches I should use?
Comment: Dealing with transcriptome sequences that are smaller than their respective gene
by
langziv
▴ 50
I modified the question so that instead of genes the question refers to CDSs.
Comment: Dealing with transcriptome sequences that are smaller than their respective gene
by
langziv
▴ 50
Thanks. Is there an approach or a guideline to filter such sequences?
Answer: Assistance with Fungal Genome Annotation Using Maker and BLAST
by
Juke34
8.2k
There are tools to combine output from blast in tabulated format like in the example here [enter link description here][1](see functional …
Answer: Importance of Data Structures for Bioinformatics?
by
xiaoguang
▴ 120
Bioinformatics is a cross-disciplinary research subject and learning anything is a plus for future participation in related jobs. But right…
Answer: How to find positions with higher depth relative to their surroundings
by
xiaoguang
▴ 120
I saw you want to get regions that have significantly higher depth than their surroundings; you must get a p-value to show significant as w…
Comment: how to calculate BAF and LRR from VCF or BCF files?
by
xiaoguang
▴ 120
Hi, The ASCAT new version has introduced a new function called `ascat.prepareHTS`, which can be used to prepare all files that are required…
Comment: GERP++ (gerpcol) error on a test data
by
Diana
• 0
I solved the problem in the end. I was under the impression that the reference sequence had to be provided in a separate fasta file: c…
Answer: How to find positions with higher depth relative to their surroundings
by
d-cameron
★ 2.9k
The usual way of doing this is to use one of the many existing copy number variant caller. Doing this yourself is both a) complicated to do…
Answer: How to retrieve LoF and missense variants in WES data?
by
luffy
▴ 30
@ _quantum_girl_, as Pierre mentioned, you can annotate your VCF with [snpEff][1] or [ensembl vep][2] once you annotated you could filter n…
Comment: Adding a control sample to bulk RNA-seq
by
Chris
▴ 180
Thank you so much! It is from the same lab but from another project. Would you please explain about combining the counts together a little …
Answer: Importance of Data Structures for Bioinformatics?
by
d-cameron
★ 2.9k
> how important are Data Structures to multi-omic / bioinformatic analysis Generally speaking, they're not critical if you are using an …
Answer: Recommended order of operations for identifying the genomic location and copy-nu
by
dk0319
▴ 70
Update: The above workflow was successful, in that contig_1719 does contain approximately 4 copies of my insert based on searching pieces o…
Comment: manhattan plot with vcf information
by
sooni
▴ 10
I want to find out specific genes using the manhattan plot. I divide the patients into two groups, controls and patients, and try to identi…
Traffic: 2592 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