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681 results • Page
3 of 14
Sort: replies
Rank
Views
Votes
Replies
0
votes
5
replies
361
views
How to convert normalized BigWig file to count matrix?
count-matrix
BigWig
7 days ago by
feather-W
• 0
1
vote
5
replies
364
views
Reconstruction of locus, order contigs
contigs
cluster
alignment
locus
updated 2 days ago by
dthorbur
★ 2.0k • written 3 days ago by
BATMAN
• 0
0
votes
5
replies
330
views
Too many unpaired forward reads found by Trimmomatic
Trimmomatic
7 days ago by
SilhouetteQ
• 0
0
votes
5
replies
291
views
bbmerge (bbmap) ~ error with insert size file output
bbtools
bbmerge
bbmap
updated 4 days ago by
GenoMax
142k • written 5 days ago by
chrisk
• 0
2
votes
5
replies
520
views
featureCounts output summary assigned value higher than uniquely mapped reads from HISAT2
RNA-seq
featureCounts
HISAT
updated 5 days ago by
Ram
43k • written 11 days ago by
Prawesh
• 0
2
votes
5
replies
2.5k
views
identifying transgene insertion site in WGS
WGS
insertion site
trangene
de-novo
soap
updated 11 days ago by
Cameron.walker9900
• 0 • written 5.1 years ago by
Assa Yeroslaviz
★ 1.8k
3
votes
5
replies
362
views
Per base sequence content error in RNAseq analysis
RNA-seq
analysis
updated 28 days ago by
GenoMax
142k • written 28 days ago by
ahmad.sajad4541
• 0
2
votes
5
replies
799
views
what's the genomic location and name of gene responsible for orange and black patches in calico cats
genomes
updated 29 days ago by
Jesse
▴ 770 • written 4 weeks ago by
Ann
★ 2.4k
2
votes
5
replies
550
views
Fetch table from clinvar database according to a list of rsid
python
clinvar
perl
21 days ago by
ashaneev07
▴ 20
2
votes
5
replies
604
views
Tissue-specific DEG analysis with DEseq2
DEseq2
RNA-seq
DEG
R
updated 7 days ago by
arctic
▴ 40 • written 16 days ago by
M.
▴ 30
1
vote
5
replies
231
views
Circos Plot to Visualize Chromatin Accessibility Changes from ATAC-seq Data
circos
atacseq
updated 4 days ago by
Pierre Lindenbaum
161k • written 4 days ago by
biology_inform
▴ 50
1
vote
5
replies
505
views
How should I make kallisto indexes?
kallisto
updated 20 days ago by
dsull
★ 6.0k • written 4 weeks ago by
bioinfo
▴ 150
0
votes
5
replies
311
views
Percentage coverage of reference genome by de novo genome
SAMtools
BWA
alignment
ddRAD
updated 12 days ago by
Joe
21k • written 12 days ago by
Lemonhope
• 0
0
votes
5
replies
404
views
Easy way to find out which allele is minor allele from bed file?
plink
updated 16 days ago by
chrchang523
10k • written 16 days ago by
curious
▴ 750
4
votes
5
replies
3.4k
views
How to compare compare two Sam files to check mapping
alignment
updated 11 days ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
8
votes
5
replies
6.6k
views
ISCN annotation for SV/CN VCF files
SV
written 8 months ago by
a.beggs
▴ 60
4
votes
5
replies
467
views
Figures are disappeared from html report of SnpEff
HTML
SnpEff
21 days ago by
analyst
▴ 50
0
votes
5
replies
458
views
6 follow
What purposes can TPM values be used for?
RNA-seq
TPM
Normalization
DESeq2
updated 17 days ago by
b.contreras.moreira
▴ 200 • written 17 days ago by
JH
• 0
2
votes
5
replies
658
views
MEGA Analysis Issue on High-Performance Computer
phylogenetic-analysis
MEGA
updated 29 days ago by
Mensur Dlakic
★ 27k • written 4 weeks ago by
Giorgio
• 0
1
vote
5
replies
808
views
Converting IGV to Figure using Illustrator (or other tools)
Illustrator
IGV
written 6 months ago by
Daniel
▴ 30
1
vote
5
replies
393
views
Introduce SNPs on FASTA
simulation
snps
haplotypes
pharmacogenetics
17 days ago by
Riccardo
▴ 10
0
votes
5
replies
447
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative
ncbi
asembly
refseq
updated 25 days ago by
GenoMax
142k • written 25 days ago by
Bertalan_Takacs
▴ 90
3
votes
5
replies
418
views
Converting CRAM to FastQ
GATK
samtools
cram
SamToFastq
fastq
16 days ago by
Maverick
▴ 10
3
votes
5
replies
648
views
SLURM submission problem: Indexing the Reference Genome is not done in STAR
align
RNA-Seq
linux
STAR
28 days ago by
n_navy
• 0
6
votes
5
replies
1.7k
views
How to calculate coverage of Nanopore long read data?
sequencing
coverage
5 days ago by
Arton
▴ 10
1
vote
5
replies
656
views
Cell barcode whitelists for DNBelab C Series High-throughput Single-cell RNA Series Library Preparation Set?
cell-barcode
MGI
DNBelab
single-cell
updated 26 days ago by
atowns21
• 0 • written 4 months ago by
benjamin.pyenson
• 0
4
votes
5
replies
4.4k
views
Tool:
GRIDSS: the Genomic Rearrangement IDentification Software Suite
Assembly
Structural-Variation
Variant-Calling
updated 3 days ago by
dario.garvan
▴ 520 • written 7.2 years ago by
d-cameron
★ 2.9k
1
vote
5
replies
486
views
HCL database download
HCL
updated 12 days ago by
Ram
43k • written 16 days ago by
sooni
▴ 20
1
vote
5
replies
383
views
install.packages("imudata") - package ‘imudata’ is not available for this version of R
r
updated 14 days ago by
Ram
43k • written 14 days ago by
snajafy
• 0
0
votes
5
replies
439
views
Should I remove unlocalized scaffols in reference genome before alignment?
qualimap
alignment
minimap2
GRCh38
assembly
26 days ago by
njornet
▴ 20
3
votes
5
replies
354
views
Generating mpileup file using samtools
mpileup
samtools
updated 17 days ago by
Joe
21k • written 17 days ago by
Ruqaiya
• 0
5
votes
5
replies
678
views
Tutorial:
how to combine multiple RNAseq count files into a single dataframe in R and unix
Unix
RNAseq
R
updated 16 days ago by
Mbofire
• 0 • written 25 days ago by
Ming Tommy Tang
★ 3.9k
2
votes
5
replies
10k
views
Find Corresponding Author: Doi Metadata?
updated 28 days ago by
Ram
43k • written 10.6 years ago by
Louis
▴ 150
0
votes
5
replies
438
views
Telescope issue
Telescope
RNA-seq
updated 18 days ago by
GenoMax
142k • written 19 days ago by
eleven11
• 0
2
votes
5
replies
960
views
Retrieval of Active site information programmatically
Catalytic
Python
Active
PDB
site
Site
updated 20 days ago by
Wayne
★ 2.0k • written 2.1 years ago by
arinjoy
• 0
5
votes
5
replies
351
views
Error in dimnames(x) <- dn : length of 'dimnames' [2] not equal to array extent
EGSEA
12 days ago by
Chris
▴ 280
1
vote
5
replies
522
views
DYH17 Structure Prediction
BLAST
Protein-Structure-Prediction
26 days ago by
anasjamshed
▴ 120
2
votes
5
replies
548
views
Marking duplicates using UMIs
Deduplication
UMI
updated 28 days ago by
i.sudbery
19k • written 29 days ago by
Lipika
• 0
0
votes
5
replies
361
views
A question about reference genome for creating the consensus sequence
fasta
fa
cram
genome
11 days ago by
me
• 0
0
votes
5
replies
312
views
calculating genomic coverage/ base overlap in R
genomics
updated 2 days ago by
1769mkc
★ 1.2k • written 5 days ago by
Xbox_27
• 0
0
votes
5
replies
469
views
different FeatureCounts output for the same data
fpkm
Counts
Rsubread
rna-seq
updated 22 days ago by
Istvan Albert
100k • written 26 days ago by
sehriban.buyukkilic
▴ 10
1
vote
5
replies
273
views
Annotating file using bcftools
annotation
plink
bcftools
3 days ago by
kl
▴ 10
1
vote
5
replies
411
views
Comparative Analysis of Algorithms for Implementing the FM-Index: Correctness, Complexity, and Use Cases
fmindex
bwt
updated 12 days ago by
Michael
54k • written 13 days ago by
qwertyuiop26
• 0
2
votes
5
replies
438
views
Importing a fastq file
Fastq
updated 10 days ago by
size_t
▴ 120 • written 11 days ago by
oumo
• 0
2
votes
5
replies
290
views
What does the 'E%' represent in BUSCO results?
BUSCO
updated 6 days ago by
Philipp Bayer
8.5k • written 6 days ago by
林明德
• 0
1
vote
5
replies
319
views
Can I perform a correlation test with 3 biological replicates per condition?
RNA-Seq
deseq2
updated 3 days ago by
Ram
43k • written 4 days ago by
manuelmourato25
• 0
2
votes
5
replies
435
views
How to trim transcripts using information from NCBI contamination screen report
RNAseq
assembly
transcriptome
contamination
24 days ago by
Lada
▴ 30
5
votes
5
replies
364
views
Problem with data downloaded from Short Reads Archive (SRA)
SRA
DADA2
metabarcoding
updated 17 days ago by
atharvakarkare14
▴ 40 • written 18 days ago by
Begonia_pavonina
▴ 150
1
vote
4
replies
414
views
Segmentation error while using a tool
smalt
updated 16 days ago by
Mensur Dlakic
★ 27k • written 16 days ago by
Ruqaiya
• 0
2
votes
4
replies
5.6k
views
44% Successfully Assigned Fragments with featureCounts after 85% uniquely mapped reads with STAR
rna-seq
alignment
RNA-Seq
featureCounts
STAR
updated 6 days ago by
Thind amarinder
▴ 340 • written 5.0 years ago by
garbuzov
▴ 70
681 results • Page
3 of 14
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Answer: How to find identical sequences in genome fasta file (by Python or any possible
by
GenoMax
142k
> My final purpose are find and remove any identical sequences present in my genome fasta file. You can use `clumpify.sh` from BBMap suite…
Comment: GO analysis: Indicate genes corresponding to the pathway
by
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▴ 130
I think you have set a filter to get these pahways upstream from the DEG results. You should extract the IDs or names of the genes that you…
Comment: GATK Structural Variants Pipeline - Steps
by
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▴ 20
Thank you for the response, I mean those tools aren't all the steps from fasta to vcf. Would be key understanding the aligner, reference us…
Comment: seqtk subseq in.fastq list.txt > out.fastq not extracting full sequence from
by
GenoMax
142k
Please accept the answer (green check mark) to provide closure to this thread.
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161k
> A structural variation pipeline for short-read sequencing https://github.com/broadinstitute/gatk-sv
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by
DGTool
▴ 20
If it is just the tools that they used which you are looking for, the first link in the overview section of that page leads to the followin…
Comment: GO analysis: p-value range
by
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4.6k
It is just a warning that you add a new scale to a ggplot2 plot, that already has an existing one, which will get replaced. Nothing to worr…
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▴ 130
If you write me the code you used I can help you more
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When I run the code, the following message appears: Scale for y is already present. Adding another scale for y, which will replace…
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Command line is as follows: python -m jcvi.graphics.synteny Cs.Cm.i1.blocks Cs_Cm.bed layout2.txt
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Hi, I also had the same problem. If you check its github page there have been no releases for many years and these errors cannot be fixed. …
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Thanks, thats really helpful ![enter image description here][1] ![enter image description here][2] [1]: /media/images/0470f3dc-5945-…
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SNPRelate is an R package that is able to read from VCF files directly and perform PCA and IBD/IBS. See the documentation for details in Bi…
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