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122,213 results • Page
706 of 2445
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
710
views
PSI(Percent spliced-in) Difference test
RNA-Seq
4.7 years ago by
fuhaolll2
▴ 30
1
vote
2
replies
3.2k
views
Filter field are all ".", no "PASS" in vcf file ?
software error
next-gen
sequencing
genome
updated 4.7 years ago by
prashantwaiker
• 0 • written 11.2 years ago by
897598644
▴ 110
0
votes
0
replies
2.5k
views
PGLS in R - nlme:gls VS caper:pgls - non-ultrametric tree & negative lambda values
r
pgls
negative-lambda
non-ultrametric tree
4.7 years ago by
gabry.scata
• 0
0
votes
3
replies
1.8k
views
to annotate BEDPE files
bedtools
annotate
updated 2.2 years ago by
Lhl
▴ 760 • written 4.7 years ago by
Bogdan
★ 1.4k
0
votes
4
replies
1.8k
views
RepeatModeler:Input has potential formatting error
assembly
updated 4.7 years ago by
tothepoint
▴ 940 • written 4.7 years ago by
slin023
▴ 20
0
votes
1
reply
1.4k
views
News:
Results are now Available for the precisionFDA Truth Challenge V2
genome
updated 2.8 years ago by
Ram
45k • written 5.3 years ago by
stephens_sarah
▴ 150
0
votes
3
replies
2.0k
views
Removing batch effects
batch-effect
RNA-Seq
updated 4.7 years ago by
swbarnes2
15k • written 4.7 years ago by
avelarbio46
▴ 30
4
votes
7
replies
3.4k
views
How to extract sequences from multiple fastq files based on part of the header?
sequencing
updated 4.7 years ago by
rpolicastro
13k • written 4.7 years ago by
leranwangcs
▴ 150
0
votes
0
replies
931
views
Job:
Postdoctoral Research Fellow position in Molecular Biology
methylation
nanopore-sequencing
RNA
updated 2.3 years ago by
Ram
45k • written 4.7 years ago by
adnan.niazi
• 0
0
votes
0
replies
749
views
How to use combat in order to remove batch effects?
RNA-Seq
updated 4.7 years ago by
rpolicastro
13k • written 4.7 years ago by
emmagervide
▴ 10
2
votes
1
reply
2.8k
views
pv4 values interpretation
pv4
vcf
strand bias
baseQbias
SNP
updated 4.7 years ago by
prashantwaiker
• 0 • written 9.3 years ago by
cmatho
▴ 30
1
vote
0
replies
633
views
hmmsearch result query name problem
alignment
sequence
updated 4.7 years ago by
GenoMax
154k • written 4.7 years ago by
MEITUO
▴ 10
5
votes
7
replies
2.4k
views
Estimate running time of a orthoFinder
gene
bacteria
genome
updated 4.7 years ago by
Michael
56k • written 4.7 years ago by
dago
★ 2.8k
4
votes
8
replies
1.5k
views
How to interpret one region of gene with much higher RNASeq coverage than other regions?
RNA-Seq
4.7 years ago by
CephBirk
▴ 20
0
votes
0
replies
899
views
Reference species for Augustus
augustus
4.7 years ago by
henry-keen
▴ 50
1
vote
15
replies
3.3k
views
Picard ValidateSamFile Error: "ValidateSamFile Value was put into PairInfoMap more than once"
samtools
bam
sam
picard
alignment
4.7 years ago by
stephen.johnson.online
• 0
5
votes
6
replies
3.6k
views
Minor allele count report with --freq count in PLINK2
PLINK
MAF
updated 4.7 years ago by
chrchang523
11k • written 4.7 years ago by
L_to_the_m
▴ 10
7
votes
13
replies
5.2k
views
bcftools +fill-tag does not work in loop
bcftools
plugin
+fill-tags
loops
updated 4.7 years ago by
John Marshall
3.1k • written 4.7 years ago by
brianaloredana
▴ 30
0
votes
2
replies
2.7k
views
How to make SBGNview accepts custom sbgn input or kegg pathway? ID mapping tables between gene IDs and SBGN file glyph IDs.
sbgnview
pathview
sbgn
metabolomics
updated 2.5 years ago by
Ram
45k • written 4.7 years ago by
greyman
▴ 190
0
votes
0
replies
712
views
Looking for VCF files and clinical data for cancer (prostate or cll or breast)
vcf
cancer
somatic mutations
access to data
4.7 years ago by
ansakim20
▴ 10
1
vote
6
replies
2.5k
views
Comparing two gene lists for orthologs
orthologs
biopython
updated 4.7 years ago by
Biostar
20 • written 9.4 years ago by
Nitro_Shade
▴ 40
0
votes
0
replies
541
views
Aligning divergent mitochondrial genomes - software recommendations?
alignment
genome
4.7 years ago by
ryan.gawryluk
• 0
0
votes
2
replies
1.1k
views
demultiplexing "undetermined" ddrad data
ddRAD
4.7 years ago by
kulzer
• 0
0
votes
2
replies
812
views
a simple question about file permissions
SLURM cluster
operating system
4.7 years ago by
Bogdan
★ 1.4k
8
votes
11
replies
2.8k
views
Getting standard 12-column format for a list of genes
genome
updated 4.7 years ago by
i.sudbery
22k • written 4.7 years ago by
zizigolu
★ 4.4k
0
votes
9
replies
1.5k
views
The maximum number of peaks in a ChIP-seq data (bigWig format)
ChIP-Seq
4.7 years ago by
prgrmmr70
• 0
0
votes
1
reply
737
views
How to find if sequences perfectly overlap
biopython
pairwise2
4.7 years ago by
gero.knittel
▴ 10
0
votes
0
replies
499
views
Using Maker to map foward annotations from reference gff
annotation
4.7 years ago by
robert.murphy
▴ 110
5
votes
2
replies
1.2k
views
Split Multimer Sequences at motif in FASTQ
sequencing
next-gen
fastq
split
motif
updated 4.7 years ago by
GenoMax
154k • written 4.7 years ago by
schmau
▴ 10
4
votes
3
replies
3.1k
views
Basecalling of Nanopore Raw file
sequencing
next-gen
genome
4.7 years ago by
AS-git
• 0
0
votes
2
replies
1.8k
views
Get TSS information from GFF3 file depending on strand
TSS
GFF
updated 4.7 years ago by
williamsbrian5064
▴ 540 • written 4.7 years ago by
S.Fajon
• 0
4
votes
4
replies
1.4k
views
Check for duplicates and determine sex from the VCF in a cohort of about 110 patients
NGS
quality-control
KING
updated 3.7 years ago by
Ram
45k • written 4.7 years ago by
Gl_14
▴ 20
0
votes
2
replies
1.1k
views
Fatal error in galaxy program
RNA-Seq
next-gen
sequence
4.7 years ago by
ashwing.kofficial
▴ 10
3
votes
2
replies
955
views
Different symbols in genotype field in VCF files
gene
SNP
4.7 years ago by
khatami.mahshid
▴ 30
17
votes
7
replies
6.7k
views
Remove uncharacterized chromosomes from reference fasta file
Assembly
genome
sequence
next-gen
updated 4.7 years ago by
rpolicastro
13k • written 4.7 years ago by
williamsbrian5064
▴ 540
0
votes
0
replies
1.1k
views
Job:
Bioinformatician position in multi-omics modeling of renal cancer biology for precision medicine (CEA, France)
cancer-biology
multi-omics
precision-medicine
updated 2.3 years ago by
Ram
45k • written 4.7 years ago by
chris_battail
• 0
0
votes
4
replies
1.1k
views
How Can determine which one of two similar genes is expressing in RNAseq data ?
RNA-Seq
4.7 years ago by
yiren
▴ 10
0
votes
0
replies
380
views
SNPCHIP data analysis
ChIP-Seq
genome
sequencing
4.7 years ago by
arfazevedo
• 0
0
votes
0
replies
534
views
some questions about the bacteria sRNA
rna-seq
4.7 years ago by
972050141
• 0
0
votes
0
replies
1.3k
views
Tools for .hic file visualization
juicer
3d-dna
hic
4.7 years ago by
Picasa
▴ 700
0
votes
1
reply
1.0k
views
Regarding biological replicates in DNA methylation analysis
genome
sequence
R
updated 4.7 years ago by
Biostar
20 • written 4.8 years ago by
kajol21bm
• 0
0
votes
0
replies
842
views
Get full output with hmmscan in bio3d
bio3d
4.7 years ago by
lessismore
★ 1.4k
1
vote
4
replies
1.8k
views
Bedtools fisher error
BEDtools
bedtools
Fisher's exact test
error
4.7 years ago by
hemr3
▴ 10
0
votes
2
replies
2.0k
views
Combine a sample that is run in two lanes by the Seurat objects
RNA-Seq
R
rna-seq
scRNA-seq
seurat
4.7 years ago by
Mehrdad Zandigohar
• 0
2
votes
7
replies
1.8k
views
help with deleting multiple fasta sequences using biopython
genome
sequence
sequencing
python
updated 4.7 years ago by
Joe
22k • written 4.7 years ago by
Bacteria_forever
▴ 10
4
votes
8
replies
3.0k
views
How do I install Boost and the bjam build engine for Cufflinks
RNA-Seq
rna-seq
next-gen
updated 2.4 years ago by
Forough
▴ 10 • written 4.7 years ago by
giusdalt95
▴ 10
0
votes
2
replies
750
views
Any Group to collaborate on research for genome scale model?
Genome scale model
metabolic engineering
4.7 years ago by
enuhblaise
• 0
0
votes
5
replies
2.3k
views
Problem with import of multiVCF by readData from popgenome R package
R
popgenome
readData
vcf
multiVCF
4.7 years ago by
pavlo.maksimov
• 0
0
votes
0
replies
506
views
Can we get information regarding microRNA expression from small RNA-seq ?
RNA-Seq
next-gen
updated 4.7 years ago by
ATpoint
90k • written 4.7 years ago by
w_abc
• 0
0
votes
0
replies
729
views
copy number variation, chrom plot
gene
4.7 years ago by
Rob
▴ 180
122,213 results • Page
706 of 2445
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Recent Replies
Answer: How excactly is the Q30 is calculated?
by
GenoMax
154k
[**Phred quality scores**][1] have been in use since the 1990s and early days of human genome project. They were co-opted in the fastq form…
Comment: best practice for diploid variant calling
by
Matteo Ungaro
▴ 130
@kevin thanks I was experimenting with the following since I already pursued most of the approaches you mentioned and, in practice, they ar…
Answer: Chip-seq analysis Diffbind
by
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90k
I think the results are expected. a) n=2 is underpowered, for any assay and in particular for ChIP-seq which has considerable noise. b) you…
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Wu-Sheng Zhang
▴ 10
Hi @arup , after changing the file name following the read length, I can process them using cellranger arc successfully. Thank you very muc…
Comment: Visualize methylation status in Pacbio Hifi read
by
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★ 4.4k
(as the JBrowse dev) I'm glad to hear this. if you see any trouble with it feel free to let me know, I have tried to keep up to date with m…
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Wu-Sheng Zhang
▴ 10
Got it! I will try to switch their name and re-run the cellranger arc. Thank you very much, @arup !
Answer: low quality data or file name swapping -- cellranger arc errors when processing
by
Arup Ghosh
3.5k
The barcode files with 24nt read length W71_LUNGrep2_S6_L001_R3_001.fastq.gz and W71_LUNGrep2_S6_L002_R3_001.fastq.gz should be the R2.
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154k
Each database has their own method of annotation/validation. Depending on resources available there may be a lag between the databases in t…
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
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▴ 10
Hi @arup , thank you very much for your suggestions, and here are the results -- they seems correct. May I have your suggestions? Thank you…
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by
samuel.a.odonnell
▴ 640
I don't believe merqury ignores softmasked (lower case) nucleotides so I don't think that is the case. From what it sounds like, during th…
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Thanks a lot to be helpful I’m trying to build a complete `UniProtID` to `GeneSymbol` lookup table and I’m running into a wall. I’ve alrea…
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by
thomas.heigl.ibk
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thanks for the quick reply. i posted the screenshot. gatk-internally, there is still the difference using -ERC or not, priot is getting …
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by
thomas.heigl.ibk
▴ 20
here the igv view. showing the histogram for all samples plus the reads for one: ![enter image description here][1] and expanded view of …
Comment: low quality data or file name swapping -- cellranger arc errors when processing
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3.5k
Check the read lengths to make sure the files are correct.
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
by
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166k
> Any suggestions or help you could share please, show us an IGV screenshot of the position GATK realign the reads locally, discards read…
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