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
122,211 results • Page
695 of 2445
Sort: Rank
Rank
Views
Votes
Replies
4
votes
2
replies
2.6k
views
Extracting specific cancer types from MAF (Mutation Annotation Format) files from TCGA(The Cancer Genome Atlas)
ENCODE
mutation
maf
TCGA
cancer
4.7 years ago by
peter
▴ 20
0
votes
1
reply
1.1k
views
how to run FATHMM-MKL program based on hg38?
FATHMM-MKL
updated 4.7 years ago by
Kevin Blighe
★ 90k • written 4.7 years ago by
kamanovae
▴ 100
14
votes
26
replies
18k
views
10 follow
makeblastdb Fasta file with 25 sequences gives Error: mdb_env_open: There is not enough space on the disk
blast
makeblastdb
updated 4.7 years ago by
alowi33
▴ 50 • written 5.9 years ago by
minicola
▴ 20
0
votes
0
replies
1.7k
views
Job:
2 Computational Biologist / Data scientist positions in single-cell and multi-OMICs data integration at Institut Imagine (Paris, FR)
single-cell
sequencing
genomics
updated 2.7 years ago by
Ram
45k • written 4.7 years ago by
fracarb8
★ 1.8k
2
votes
2
replies
3.7k
views
Question regarding TCGA and TCGAbiolinks --> RNAseq data as HTseq-Counts, FPKM, FPKM-UQ
RNAseq
FPKM-UQ
FPKM
TCGAbiolinks
TCGA
4.7 years ago by
mario.red8976
▴ 140
1
vote
1
reply
2.3k
views
Designing linear model matrix (limma) for differential methylation analysis using Illumina EPIC Methylation Array
EPICarray
microarray
DifferentialMethylation
updated 4.7 years ago by
Basti
★ 2.1k • written 4.7 years ago by
Yashrajsinh Jadeja
• 0
0
votes
6
replies
2.0k
views
How do I filter interactions that are more than 100kb and less than 3kb
bed
rna
genome
programming
genomics
4.7 years ago by
koushikayaluri
▴ 70
3
votes
6
replies
2.1k
views
Selecting genotypes for a specific chromosome belonging to a specific patient from a multi patient VCF file
sequence
4.7 years ago by
dk0319
▴ 70
0
votes
1
reply
934
views
Forum:
Apache Spark on AWS
apachespark
updated 4.7 years ago by
Jeremy Leipzig
23k • written 4.7 years ago by
Bogdan
★ 1.4k
0
votes
8
replies
3.3k
views
MACS: peak calling from snATAC data
ATAC
MACS
Rstudio
Peakcalling
4.7 years ago by
abiuma
▴ 30
0
votes
0
replies
849
views
Best way for finding annotated counterparts of unknown transcript after BLAST
blast
efetch
pipeline
annotation
4.7 years ago by
Mathias
• 0
0
votes
0
replies
3.1k
views
MEGA X (but not MEGA 7) Error: Access Violation loading fasta file
MEGAXError:AccessViolationloadingfastafile
updated 4.7 years ago by
GenoMax
154k • written 4.7 years ago by
Phil
• 0
2
votes
1
reply
1.5k
views
Bedmethyl
methylation
bedmethyl
updated 3.6 years ago by
elisheva
▴ 120 • written 4.7 years ago by
alorsonmethyle
▴ 50
12
votes
6
replies
11k
views
What do these MA plots signify?
seq
rna
maplot
sequencing
deseq2
updated 4.7 years ago by
sim.j.baum
▴ 170 • written 4.7 years ago by
fufor94
▴ 10
3
votes
5
replies
2.3k
views
Is there a software for genomic calculation of GC content and Gene density under sliding windows?
GCcontent
genedensity
updated 4.7 years ago by
ATpoint
90k • written 4.7 years ago by
weishang
▴ 20
1
vote
0
replies
1.4k
views
Combine multiple groups on comparison by edgeR
glm
rna-seq
edgeR
4.7 years ago by
camelest
▴ 50
0
votes
0
replies
677
views
Unable to get root element from XML file
blast
galaxy
annotation
4.7 years ago by
Pamela
• 0
7
votes
4
replies
2.7k
views
Per base sequence content of FastQC Report
rna-seq
4.7 years ago by
yueli7
▴ 250
3
votes
3
replies
3.1k
views
How can I get the Shannon and observed alpha diversity Index value?
R
4.7 years ago by
dpc
▴ 250
2
votes
5
replies
3.7k
views
Generating a heatmap in DEG analysis
Differential-gene-expression
RNA-Seq
updated 19 months ago by
Ram
45k • written 4.7 years ago by
Pranathi
▴ 10
0
votes
2
replies
1.5k
views
How can a duplicate read be interchromosomal?
interchromosomal
duplicate
NGS
samtools
picard
4.7 years ago by
maxrwjones
▴ 60
2
votes
3
replies
4.2k
views
ComplexHeatmap log scale gradient
log
colours
complexHeatmap
updated 4.7 years ago by
ATpoint
90k • written 4.7 years ago by
Carab
• 0
6
votes
9
replies
2.9k
views
what can i use many RNAseq data to do ?
RNA-Seq
updated 4.7 years ago by
Kevin Blighe
★ 90k • written 4.7 years ago by
yiren
▴ 10
2
votes
4
replies
1.8k
views
bidirectional blast p
Ensembl
BLASTpbidirectional
orthologus
updated 4.4 years ago by
Ram
45k • written 4.7 years ago by
sayyarsehrish
• 0
3
votes
2
replies
3.0k
views
UMAP of 10X and SmartSeq2 datasets on same plot
smartseq2
singlecellrna-seq
umap
10xgenomics
updated 4.7 years ago by
ATpoint
90k • written 4.7 years ago by
a.rex
▴ 350
0
votes
1
reply
839
views
Genes IDs of RNA_Seq results
gene
format
genome
fasta
conversion
updated 4.7 years ago by
GenoMax
154k • written 4.7 years ago by
hashim.a50
• 0
0
votes
0
replies
535
views
Figure for relative error with large database
python
database
4.7 years ago by
Evy_00
• 0
1
vote
0
replies
1.7k
views
Job:
Scientific Coordinator / Knowledge Graph Engineer
rdf
sparql
updated 4.7 years ago by
Istvan Albert
103k • written 4.7 years ago by
me
▴ 760
0
votes
5
replies
2.8k
views
How to quickly find the position of k-mer on the genome
alignment
sequencing
k-mer
updated 3.6 years ago by
Christophe
• 0 • written 4.7 years ago by
slbai00001
• 0
4
votes
5
replies
3.0k
views
Bowtie2 & Hisat2 SAM flags above 256?
manual
SAM
read-mapping
flags
bowtie2
4.7 years ago by
maxrwjones
▴ 60
1
vote
2
replies
1.7k
views
How to get raw read counts of genes/cds/transcripts from SAM/BAM file?
RNA-Seq
alignment
gene
sequencing
assembly
4.7 years ago by
shail.nair05
▴ 20
2
votes
4
replies
2.5k
views
How to install Jellyfish in Windows 10?
general
updated 4.7 years ago by
jared.andrews07
★ 19k • written 4.7 years ago by
rubyeat88
▴ 10
0
votes
1
reply
1.1k
views
The effect of metabolomics on other omics
metabolomics
multiomics
updated 2.7 years ago by
Ram
45k • written 4.7 years ago by
mrashad
▴ 80
0
votes
2
replies
993
views
Figure for relative error with large database
python
data
4.7 years ago by
Evy_00
• 0
0
votes
0
replies
1.0k
views
LD pruning parameters
linkage
pruning
plink
4.7 years ago by
anithanagaraj93
▴ 10
0
votes
17
replies
4.3k
views
I am not able to let R read my file
R
fasta
updated 4.7 years ago by
Arup Ghosh
3.5k • written 4.7 years ago by
trejomarco6
• 0
0
votes
1
reply
1.0k
views
Trouble in SNP calling using GATK HaplotypeCaller
gatk
genome
updated 4.7 years ago by
tothepoint
▴ 940 • written 4.7 years ago by
pengxw1990
• 0
4
votes
2
replies
2.3k
views
"heightweight" R-dataset data-structure?
heavyweight
R-language
4.7 years ago by
natasha.sernova
★ 4.0k
1
vote
2
replies
1.3k
views
How to do clustering of SNPs according to linkage disequilibrium (r2) values?
nex-gen
R
rna-seq
snp
genome
3.3 years ago by
anikcropscience
▴ 270
0
votes
0
replies
876
views
Getting distance matrix from specific models for AA/Nt MSA
msa
distancemodels
raxml
python
biopython
4.7 years ago by
Klios3th
• 0
0
votes
1
reply
1.4k
views
Altering a python script to calculate GC content
sequence
updated 4.7 years ago by
Mensur Dlakic
★ 30k • written 4.7 years ago by
dk0319
▴ 70
0
votes
0
replies
844
views
Job:
Two postdocs (one wet, one dry) in 3' UTR biology and RNA threapeutics
rna
machine-learning
utr
4.7 years ago by
i.sudbery
22k
0
votes
3
replies
2.6k
views
What is the error of this Nexus file? I cannot open it in Figtree
figtree
ggtree
R
phylogenetics
4.7 years ago by
fhsantanna
▴ 620
0
votes
3
replies
1.1k
views
Risk calculation in pedigrees
genome
updated 4.7 years ago by
German.M.Demidov
★ 3.0k • written 4.7 years ago by
storm1907
▴ 30
0
votes
0
replies
667
views
Altering a python script to calculate GC content
sequence
4.7 years ago by
dk0319
▴ 70
0
votes
1
reply
898
views
identify most variable bacteria within microbiome longitudinal data
microbiome
longitudinal data
statistics
R
updated 4.7 years ago by
Biostar
20 • written 4.7 years ago by
AQ7
▴ 30
0
votes
0
replies
1.2k
views
How to instsall "Structure 2.3" for windows 10, 64bit
software error
4.7 years ago by
hosin
• 0
0
votes
1
reply
755
views
Nanopore data error
RNA-Seq
updated 4.7 years ago by
Ram
45k • written 4.7 years ago by
mailard
▴ 30
0
votes
1
reply
764
views
Having issues with having extra information on my Fasta file.
sequence
4.7 years ago by
trejomarco6
• 0
9
votes
5
replies
3.9k
views
Forum:
Should I get my MS in Bioinformatics at UCSC or GA Tech
genome
updated 2.7 years ago by
Ram
45k • written 4.7 years ago by
nickroseae
▴ 10
122,211 results • Page
695 of 2445
Recent Votes
what cause poly-G from NextSeq
what cause poly-G from NextSeq
A: what cause poly-G from NextSeq
A: what cause poly-G from NextSeq
How to trim transcripts using information from NCBI contamination screen report
How to trim transcripts using information from NCBI contamination screen report
Trimming sequences based on NCBI contamination screen report
Recent Locations •
All
Poland,
3 minutes ago
Ramat Gan,
3 minutes ago
United Kingdom,
5 minutes ago
Italy,
7 minutes ago
Peru,
8 minutes ago
India,
14 minutes ago
Switzerland,
18 minutes ago
Recent Awards •
All
Popular Question
to
biotrekker
▴ 110
Popular Question
to
zizigolu
★ 4.4k
Popular Question
to
Biomed-jeh
▴ 70
Popular Question
to
gernophil
▴ 130
Popular Question
to
Lila M
★ 1.3k
Popular Question
to
ecSeq Bioinformatics
▴ 20
Popular Question
to
QX
▴ 80
Recent Replies
Answer: Chip-seq analysis Diffbind
by
ATpoint
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
cmdcolin
★ 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.
Comment: ID unifiying across different datasets
by
GenoMax
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
Wu-Sheng Zhang
▴ 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…
Comment: Why did the QV value decrease significantly after using YAHS for HiC scaffolding
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…
Comment: ID unifiying across different datasets
by
zizigolu
★ 4.4k
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…
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
by
thomas.heigl.ibk
▴ 20
thanks for the quick reply. i posted the screenshot. gatk-internally, there is still the difference using -ERC or not, priot is getting …
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
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
by
Arup Ghosh
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
Pierre Lindenbaum
166k
> Any suggestions or help you could share please, show us an IGV screenshot of the position GATK realign the reads locally, discards read…
Comment: Can i use orthofinder for small protein datasets and not full proteome?
by
alexandrakortsi
• 0
By sequence. Thank you for your response!
Comment: Why did the QV value decrease significantly after using YAHS for HiC scaffolding
by
xinguok794
▴ 10
Thank you for your reply! Unfortunately, despite running YAHS with `--no-contig-ec`, the QV value of the resulting FASTA file did not impro…
Traffic: 3394 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