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121,542 results • Page
1762 of 2431
Sort: Rank
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Votes
Replies
3
votes
6
replies
7.2k
views
Comparing WGS, WXS, and SNP Array data
SNP
wgs
updated 8.8 years ago by
charco
▴ 50 • written 8.8 years ago by
novice
★ 1.1k
0
votes
0
replies
2.9k
views
gold standard for human genome genotyping
indel
genotyping
1k human genome dataset
updated 8.8 years ago by
Biostar
20 • written 9.1 years ago by
watermelon1037
• 0
2
votes
5
replies
3.0k
views
CLC worcbench assembly
Assembly
next-gen
updated 8.8 years ago by
lakhujanivijay
5.9k • written 8.8 years ago by
reza
▴ 300
2
votes
1
reply
10k
views
R package "tsne" and "Rtsne" give different cell clustering results
RNA-Seq
R
Single Cell Analysis
t-SNE
updated 8.8 years ago by
igor
13k • written 8.8 years ago by
Elaine.7
▴ 10
0
votes
0
replies
1.5k
views
When to use class assignment analysis for gene expression microarray data
R
gene expression
machine learning
8.8 years ago by
BioMed
▴ 50
4
votes
4
replies
3.6k
views
Find Fragment Size of a bamfilee
ChIP-Seq
updated 8.8 years ago by
apnri
▴ 40 • written 8.8 years ago by
GK1610
▴ 120
3
votes
6
replies
2.4k
views
Retrieving data of all exons from UCSC using MySQL
ucsc
mysql
8.8 years ago by
tiago211287
★ 1.5k
5
votes
1
reply
2.2k
views
Non-Overlapping, de-deduplicated BED file download with exons as separate records
ChIP-Seq
Bedtools
UCSC Browser Table
updated 8.8 years ago by
tiago211287
★ 1.5k • written 8.8 years ago by
abaluapuri
• 0
2
votes
3
replies
2.3k
views
How to Convert SNP's that produced from Varscan into 0,1,2 ?
SNP
updated 2.8 years ago by
Ram
45k • written 9.8 years ago by
bingnas
▴ 10
0
votes
4
replies
3.2k
views
Reading Genbank files
genbank
java
genome
gene
updated 8.8 years ago by
pbuchner.santos
• 0 • written 8.8 years ago by
torkel.loman
▴ 10
3
votes
3
replies
1.8k
views
dealing with NaN in small dataset
gene expression
8.8 years ago by
rob.costa1234
▴ 310
1
vote
1
reply
1.2k
views
what is the reason for having different phenotypes and snps?
plink
different SNPs
triallelic
8.8 years ago by
fatima
▴ 20
2
votes
6
replies
3.3k
views
HTSJDK help, how to randomaccess a position and count read counts in a bam file?
htsjdk
java
next-gen
genome
alignment
updated 8.8 years ago by
Pierre Lindenbaum
166k • written 8.8 years ago by
ylaguka
• 0
1
vote
1
reply
3.0k
views
Compare ChIP-seq data from various experiments
ChIP-Seq
Normalize
Visualisation
8.8 years ago by
bharath.mh24
• 0
0
votes
0
replies
2.5k
views
GISTIC 2.0 run of COSMIC CNA data?
COSMIC
CNA
updated 8.8 years ago by
Biostar
20 • written 8.8 years ago by
pel
▴ 20
0
votes
3
replies
3.1k
views
single cell RNA seq on Fixed cells
rna-seq
updated 8.8 years ago by
WouterDeCoster
48k • written 8.8 years ago by
shrish03
• 0
1
vote
0
replies
1.8k
views
Should variant phasing be performed before or after filtering by Minor Allele Frequency?
beagle
maf
phasing
gwas
updated 8.8 years ago by
Biostar
20 • written 9.0 years ago by
i.wilson
▴ 10
0
votes
2
replies
3.0k
views
The coverage of intergenic regions is so high in the processing of bacterial RNA-seq reads mapping to reference
next-gen
alignment
8.8 years ago by
tanxiaojuan1111
• 0
2
votes
1
reply
2.3k
views
gatk base recalibration results for 1000 genomes
1000 genomes
gatk
SNP
indel
updated 8.8 years ago by
Biostar
20 • written 8.9 years ago by
cmo
▴ 90
4
votes
3
replies
4.6k
views
Hybrid assembly of PacBio and Illumina reads
pacbio
illumina
updated 8.8 years ago by
Josué Barrera
▴ 10 • written 8.9 years ago by
int11ap1
▴ 490
0
votes
3
replies
2.2k
views
Search a proteome file to blast database (command line usage)
blast
alignment
sequence
genome
8.8 years ago by
Mehmet
▴ 820
3
votes
7
replies
3.4k
views
Best Way To Normalize Rna-Seq Data
RNA-Seq
normalization
updated 8.8 years ago by
Steven Lakin
★ 1.8k • written 8.8 years ago by
Edalat
▴ 30
0
votes
1
reply
1.3k
views
Quick question about Cuffdiff assembly option
RNA-Seq
updated 8.8 years ago by
Jeffin Rockey
★ 1.3k • written 8.8 years ago by
--panda--
▴ 30
1
vote
2
replies
2.3k
views
How to distinguish plasmids and chromosome when I analyze data from next generation sequencing?
next-gen
sequencing
gene
updated 8.8 years ago by
BioinfGuru
★ 2.1k • written 8.8 years ago by
silvia.caprari84
▴ 50
11
votes
6
replies
2.5k
views
parsing fasta file
fasta
updated 8.8 years ago by
rkostadi
▴ 60 • written 8.8 years ago by
a.rex
▴ 350
0
votes
2
replies
1.5k
views
intarprat blastn result
blast
updated 8.8 years ago by
Pierre Lindenbaum
166k • written 8.8 years ago by
nasromer2191989
▴ 20
0
votes
0
replies
2.2k
views
How to use the 1000Genomes data (hapmap data) to select tag-SNPs in HaploView?
SNP
hapmap
1000genomes
updated 8.8 years ago by
Biostar
20 • written 8.9 years ago by
psycolt2011
• 0
3
votes
3
replies
1.4k
views
A question on gene expression analysis
microarray
gene expression
updated 8.8 years ago by
Devon Ryan
105k • written 8.8 years ago by
BioMed
▴ 50
0
votes
5
replies
3.8k
views
Bioconductor not re-installing
Bioconductor
8.8 years ago by
theaspirant
• 0
1
vote
2
replies
1.8k
views
Mykrobe predictor Supplementary Training/Validation Dataset with empty cells
phenotype
drug
resistant
variant
missing-data
updated 8.8 years ago by
Michael
56k • written 8.8 years ago by
Penny Liu
▴ 30
0
votes
1
reply
2.0k
views
How to fill the gaps in the genome by using CLCgenomeworkbench?
Assembly
genome
next-gen
sequencing
sequence
updated 8.8 years ago by
lakhujanivijay
5.9k • written 8.8 years ago by
k.kathirvel93
▴ 310
2
votes
3
replies
5.0k
views
Map genes to KEGG pathways
pathway
KEGG
gene
updated 8.8 years ago by
EagleEye
7.6k • written 9.7 years ago by
joshf
▴ 50
8
votes
3
replies
8.1k
views
How to get contigs from scaffolds
Assembly
next-gen
sequencing
alignment
genome
updated 8.8 years ago by
lakhujanivijay
5.9k • written 8.8 years ago by
k.kathirvel93
▴ 310
0
votes
0
replies
1.8k
views
Error when using Baliscore
Balibase
Bali_score
8.8 years ago by
TJay
• 0
9
votes
11
replies
5.1k
views
please someone help me with running mirdeep2
software error
mirdeep2
perl
8.8 years ago by
zizigolu
★ 4.4k
0
votes
0
replies
2.6k
views
Job:
Postdoctoral Scholar Position in Comparative Plant Genomics and Bioinformatics, Univ of Connecticut, CT, USA
Plant-Genomics
Ecology
updated 2.3 years ago by
Ram
45k • written 8.8 years ago by
taraodomrn
▴ 60
0
votes
2
replies
2.7k
views
I need help with how to modify the sbdry parameter in DNAcopy
CNV
DNAcopy
updated 8.8 years ago by
ssv.bio
▴ 200 • written 8.8 years ago by
mikki
• 0
2
votes
8
replies
3.4k
views
Mann-Whitney test -- is it applicable to compare log2 fold change in a subset of genes to all genes?
RNA-Seq
8.8 years ago by
biostart
▴ 370
14
votes
6
replies
12k
views
What is the exact definition for scaffold?
Assembly
genome
alignment
sequence
next-gen
updated 8.8 years ago by
igor
13k • written 8.8 years ago by
k.kathirvel93
▴ 310
0
votes
2
replies
2.8k
views
What are the best resources or tools to sort an unsorted human gVCF
gVCF
genome VCF
unsorted
vcf
updated 8.8 years ago by
ssv.bio
▴ 200 • written 8.8 years ago by
Irene@Sequencing.com
▴ 280
0
votes
0
replies
2.4k
views
TCGA Birdseed vs MAF vs VCF
SNP
TCGA
genome
maf
mutation calling
8.8 years ago by
e.chin
• 0
0
votes
0
replies
1.5k
views
interpreting the untransmitted allele in TdT (transmission disequilibrium test)
tdt
8.8 years ago by
CrazyB
▴ 280
0
votes
0
replies
1.7k
views
News:
Workshop: Introduction to Python for biologists
next-gen
snp
genome
sequence
updated 2.3 years ago by
Ram
45k • written 8.8 years ago by
Physalia-courses
★ 2.6k
3
votes
8
replies
4.0k
views
Cloud storage of sequencing and bioinformatics data
next-gen
8.8 years ago by
emblake
▴ 90
0
votes
0
replies
1.4k
views
Trace element utilisation project
biology
trace-elements
blastp
updated 2.3 years ago by
Ram
45k • written 9.3 years ago by
reddishvilla_12
• 0
1
vote
4
replies
1.8k
views
gene expression in disease and normal
expression
healthy
and disease
updated 8.8 years ago by
Devon Ryan
105k • written 8.8 years ago by
rob.costa1234
▴ 310
0
votes
1
reply
1.6k
views
DNA Sequence listing for patent
sequence
DNA
st.25
updated 2.1 years ago by
Ram
45k • written 8.8 years ago by
akbioinfo14
• 0
3
votes
4
replies
2.2k
views
Generating gene specific interaction profile?
next-gen
Hi-C
TAD
5C
genome
updated 8.8 years ago by
i.sudbery
21k • written 8.8 years ago by
peer_wuensche
▴ 10
2
votes
3
replies
2.7k
views
Batch convert .dsrc to .fastq
rna-seq
updated 8.8 years ago by
Eric Lim
★ 2.2k • written 8.8 years ago by
emblake
▴ 90
0
votes
0
replies
2.5k
views
Mykrobe predictor AMR prediction not working
SNP
genome
updated 8.8 years ago by
GenoMax
152k • written 8.8 years ago by
Penny Liu
▴ 30
121,542 results • Page
1762 of 2431
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Answer: How to rank genes for GSEA using edgeR-LRT results ?
Comment: How to rank genes for GSEA using edgeR-LRT results ?
Answer: plotting read length distribution of Single End data
A: Forward Stand Or Reverse Strand
Answer: Preranked GSEA permutation
Answer: Preranked GSEA permutation
Answer: how to merge gbz files
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Comment: RNA seq strandedness (reverse-strand)
by
ZuelTech
• 0
I actually used STAR tool to align it to viral genomes.
Answer: Problem with Mirdeep2 and Randfold output
by
Jasim
• 0
At the moment the corresponding server is down I emailed to corresponder but He/ she on vacations till midsummer.. I am in the same boat.. …
Answer: Extract transcript fasta using gff
by
Bourumir
• 0
*gffread* is generally the right tool, but it does not produce the gene map required by downstream tools such as Salmon. Additionally, with…
Comment: calculating coverage of gene in my metagenomes with samtools
by
Pierre Lindenbaum
166k
if you use the same filtering and `samtools depth -a ` there should be no difference isn't it ? samtools coverage would be faster.
Answer: RNA seq strandedness (reverse-strand)
by
michael.ante
★ 4.0k
It depends on the alignment method you used. If you aligned against the transcriptome, you can do it that way you described. In case you al…
Comment: Trouble getting representatives from clustered_nr database
by
Adolfo
• 0
It was indeed huge, for viridiplantae we have ``` $ wc -l Viridiplantae_representative_cluster.txt 16968635 Viridiplantae_representative_…
Comment: Identification problem of IDE-8 cell on culture with inverted microscope
by
rfran010
★ 1.6k
I'm not sure this question is within the scope of the forum, so there may be better places to get an answer. Ultimately, if an adherent ce…
Answer: how to merge gbz files
by
Jouni Sirén
▴ 680
You can merge GBZ files for individual chromosomes, assuming that no node-to-segment translation was created during GBZ construction. That …
Answer: plotting read length distribution of Single End data
by
GenoMax
152k
You can't determine fragment length from single end sequencing data since you are missing information about sequence at 3'-end of that frag…
Answer: Preranked GSEA permutation
by
ATpoint
88k
From what I understand, what you describe is how the fGSEA package implements its permutation test, randomly drawing genes to get a backgro…
Answer: why bwa-mem only return one read with pair-read end
by
ATpoint
88k
I assume that you mean that per each paired-end read pair, there is only a single line of output in the BAM file. This is normal and expect…
Comment: Identifying RBP motifs overlapping exons
by
GenoMax
152k
Please edit and add the solution you found so it helps future visitors. Just saying "fixed" provides no useful information.
Answer: Identifying RBP motifs overlapping exons
by
RK
• 0
This has been fixed
Comment: Missing short indels from vcf
by
kbranger
• 0
Hi, You were right! While bcftools was sufficient for QTL, I was able to take the parent lines and original lines they were derived from a…
Comment: Trouble getting representatives from clustered_nr database
by
GenoMax
152k
Got curious about this record. It turns out that `prf` (Protein Research Foundation) record(s) actually predate GenBank. They are included …
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