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12,542 results • Page
4 of 251
Sort: Rank
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Votes
Replies
0
votes
1
reply
167
views
How to process Bulk WES data?
WES
WGS
updated 7 days ago by
GenoMax
142k • written 7 days ago by
wyuan37
• 0
0
votes
1
reply
165
views
Can diamond prepdb be used to make a taxonomically aware database?
blast
diamond
taxonomy
updated 7 days ago by
GenoMax
142k • written 7 days ago by
cedric.blais
• 0
0
votes
2
replies
444
views
News:
FINAL CALL: 8th Berlin Summer School in NGS Data Analysis - Only a few last places available
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
7 days ago by
David Langenberger
11k
0
votes
1
reply
153
views
Empty .best and .sing2 Files After Running Demuxlet
Biosciences
Demuxlet
updated 7 days ago by
Ram
43k • written 7 days ago by
eking28
• 0
2
votes
5
replies
523
views
featureCounts output summary assigned value higher than uniquely mapped reads from HISAT2
RNA-seq
featureCounts
HISAT
updated 6 days ago by
Ram
43k • written 12 days ago by
Prawesh
• 0
1
vote
3
replies
456
views
Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read reverse strand" (flag 32/0x20)
PE
BAM
SAM
flag
paired-end
7 days ago by
kalavattam
▴ 190
1
vote
2
replies
274
views
How to interpret infinite odds ratio?
statistics
6 days ago by
Lukas
• 0
4
votes
2
replies
197
views
Duplicated sequence samtools
bowtie2
samtools
updated 7 days ago by
GenoMax
142k • written 7 days ago by
Moinuddin
• 0
0
votes
0
replies
108
views
reference-free assembly error assessment tools
assembly
7 days ago by
lagartija
▴ 160
2
votes
4
replies
314
views
Benchmarking RNASeq Variant Calling Pipeline (Short Reads)
rna-seq
vcf
variant-calling
5 days ago by
Esraa
• 0
2
votes
0
replies
150
views
Herald:
The Biostar Herald for Monday, May 13, 2024
herald
7 days ago by
Biostar
2.8k
0
votes
1
reply
148
views
Splitting Seurat object by sample layers
seurat
updated 7 days ago by
Ram
43k • written 7 days ago by
kilcdincer
▴ 10
0
votes
4
replies
272
views
Galaxy StringTie error
stringtie
galaxy
6 days ago by
trkfs
• 0
0
votes
0
replies
106
views
dbNSFP sift scores integration
SIFT
VEP
dbNSFP
7 days ago by
atariw
▴ 10
0
votes
1
reply
162
views
Mouse ribosome sequences in fasta format
fasta
mm10
rRNA
updated 7 days ago by
GenoMax
142k • written 8 days ago by
octpus616
▴ 100
1
vote
4
replies
361
views
Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene prediction.
augustus
annotation
assembly
genome
updated 6 days ago by
Juke34
8.6k • written 7 days ago by
Vijith
▴ 30
0
votes
1
reply
167
views
consensus sequence calling
consensus
updated 7 days ago by
bk11
★ 2.5k • written 7 days ago by
Ghada
• 0
0
votes
3
replies
200
views
Single-cell RNA-seq FindMarker and EnhancedVolcano Plot: most genes are low -log10P value
Seurat
single-cell
scRNA-seq
R
updated 7 days ago by
Ram
43k • written 7 days ago by
yau
• 0
3
votes
2
replies
289
views
imputation through beagle
panel
beagle
reference
imputation
6 days ago by
analyst
▴ 50
0
votes
0
replies
91
views
Empty kernel in SEACells model
single-cell
scanpy
seacells
python
anndata
7 days ago by
JACKY
▴ 140
0
votes
1
reply
549
views
Using samtools with GCS (google cloud storage) on a docker container seems to give "Protocol Not Supported" error
samtools
gcs
updated 7 days ago by
aw7
▴ 300 • written 4 weeks ago by
abhishekghadge
• 0
3
votes
1
reply
226
views
Long reads and fixing of mate-pair issues/marking duplicates with samtools
mate-pair
samtools
alignment
updated 7 days ago by
aw7
▴ 300 • written 12 days ago by
Zeng Hao
▴ 40
0
votes
0
replies
106
views
Reference panel of normals for ensembl named refgenome
Mutect2
7 days ago by
gernophil
▴ 80
1
vote
0
replies
101
views
Producing sequence for splicing isoforms
isoform
rMATs
splicing
alternative
SplAdder
7 days ago by
tomas4482
▴ 400
2
votes
6
replies
414
views
BWA alignment
Samtools
bam
updated 5 days ago by
a.alnawfal.1992
▴ 260 • written 8 days ago by
Vahid
• 0
3
votes
2
replies
205
views
Publish a Letter in higher impact vs Research article in lower impact
Article
Letter
Journal
updated 7 days ago by
ATpoint
82k • written 7 days ago by
jennyp0706
• 0
0
votes
1
reply
163
views
Manual Assembly and Protein Translation, HELP, assignment revision
sequence
university
assembly
protein
genomics
updated 7 days ago by
Philipp Bayer
8.5k • written 8 days ago by
samRayne
• 0
0
votes
1
reply
254
views
Two-Sample Mendelian Randomization: Association between Instrumental Variable and Outcome
Mendelian-Randomization
updated 7 days ago by
Ram
43k • written 11 days ago by
Nikki
• 0
2
votes
14
replies
3.0k
views
6 follow
CNVKIT - unable to produce scatter and diagram pdfs
cnvkit
updated 6 days ago by
Anitha
• 0 • written 4.9 years ago by
ww22runner
▴ 60
0
votes
1
reply
204
views
Generating .bed file and .map file for polyploid vcf file through plink
bed
polyploid
map
plink
updated 7 days ago by
chrchang523
10k • written 12 days ago by
analyst
▴ 50
0
votes
0
replies
115
views
lncRNA
tcga
lncrna
8 days ago by
jain72744
▴ 10
0
votes
1
reply
251
views
Nomalization - TCGA, RNA-seq and Microarray
TCGA
RNA-seq
Nomalization
Microarray
updated 8 days ago by
Zhenyu Zhang
★ 1.2k • written 11 days ago by
jain72744
▴ 10
2
votes
5
replies
609
views
Tissue-specific DEG analysis with DEseq2
DEseq2
RNA-seq
DEG
R
updated 8 days ago by
arctic
▴ 40 • written 17 days ago by
M.
▴ 30
1
vote
2
replies
373
views
How to remove multiple batch effects from RNA-seq data before limma differential gene expression analysis?
ComBat-seq
limma
RNA-seq
removeBatchEffect
batch-effect
updated 7 days ago by
Ram
43k • written 8 days ago by
t.fortunato.asquini
• 0
2
votes
2
replies
307
views
Practical Haplotype Graph v2 not finding correct paths
Pangenome
PHG
graph
13 hours ago by
beantkapoor16
▴ 10
0
votes
2
replies
220
views
Output file of samtools flagstat empty
samtools-flagstat
updated 7 days ago by
colindaven
6.4k • written 8 days ago by
ramendra.sarma
• 0
2
votes
8
replies
403
views
joint callset and vcf sorting, unknown TAG issue
sort
bcftools
GLNexus
merge
VCF
updated 8 days ago by
Pierre Lindenbaum
161k • written 8 days ago by
Matteo Ungaro
▴ 100
0
votes
0
replies
130
views
News:
Online course: An Introduction to Nanopore Direct RNA Sequencing
Nanopore
RNAseq
8 days ago by
carlopecoraro2
★ 2.5k
0
votes
1
reply
243
views
input file in rmats
rmats
updated 9 days ago by
Mathew
▴ 150 • written 10 days ago by
Lambodarswain316
• 0
4
votes
3
replies
375
views
Kraken2 database
kraken
microbialdb
database
krakendb
kraken2
updated 7 days ago by
Mathew
▴ 150 • written 10 days ago by
Christopher
• 0
6
votes
7
replies
414
views
Longest transcript variant per gene
transcript
longest
variant
orthofinder
8 days ago by
sansan_96
▴ 90
2
votes
3
replies
298
views
error in fun(x((i)), ...) : only defined on a data frame with all numeric alike variables
studio
Cibersort
R
7 days ago by
Azra
▴ 10
2
votes
1
reply
237
views
Failed to open VCF file
GATK
sentieon
BWA-MEM
updated 9 days ago by
Pierre Lindenbaum
161k • written 9 days ago by
melissachua90
▴ 70
9
votes
7
replies
7.2k
views
Align paired and unpaired reads simultaneously using Bowtie2?
alignment
updated 9 days ago by
Ruqaiya
• 0 • written 5.7 years ago by
xiaozhongzhiping
▴ 20
0
votes
4
replies
410
views
Adata.raw.X in LIANA, something wrong with conversion from Seurat to adata in python.
k
7 days ago by
beginner123
• 0
6
votes
4
replies
13k
views
Trimmomatic: What is the difference between paired and unpaired output files in paired-end mode
trimmomatic
paired-end
updated 9 days ago by
Ruqaiya
• 0 • written 6.5 years ago by
dllopezr
▴ 130
0
votes
2
replies
236
views
java.nio.bufferunderflowexception haplotypecaller error for bqsr reads
deducplicated
java.nio.bufferunderflowexception
haplotypecaller
bqsr
7 days ago by
analyst
▴ 50
0
votes
8
replies
528
views
Is it Possible to "Merge" data from Replicates within a VCF SNP File
snp
vcf
genomics
plink
updated 1 day ago by
Pierre Lindenbaum
161k • written 10 days ago by
ajbarrett98
• 0
0
votes
11
replies
575
views
In IGV is this a heterogeneous mutation or false call?
mutations
IGV
heterogeneous
8 days ago by
Tuck898
• 0
3
votes
3
replies
290
views
what is another word for a BLAST "hit"?
blast
alignment
10 days ago by
dec986
▴ 380
12,542 results • Page
4 of 251
Recent Votes
A: Where to find PCR duplicate reads in bam file?
A: Generate Vcf.Gz File And Its Index File Vcf.Gz.Tbi
Answer: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
A: Bcftools merge taking too much time and producing large file
Answer: Kraken2 database
A: Why gene expression data should be log2 transformed?
Answer: Filter Genome for Specific Sites
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Recent Replies
Comment: how to treat the replicates while performing WGCNA
by
mavy
▴ 10
Hello I have a quick question, I did as you said , and further added the traits, found the correlation among the modules and the traits us…
Comment: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
by
ojaswinipandey
• 0
Thank you so much Dave.
Answer: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
by
Dave Carlson
★ 1.7k
The y axis represents the proportion of the total variance explained by each principal component. It's negative because the value (between…
Comment: Error in using BioSampleParser tool: subscript out of bounds
by
marco.barr
▴ 130
Hi Mohamed, I also thought the same thing but we run the risk of inserting other errors perhaps by modifying the function. I tried but I ha…
Comment: Trimming tool
by
Ram
43k
Please do a few simple Google searches before asking others for help.
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
Ram
43k
This post does not fit the theme of this forum.
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
Ram
43k
Hi, Congratulations but this is not LinkedIn, we are not a place to showcase your professional accomplishments. This does not fall under t…
Comment: Kraken2 Custom Database non-deterministic results
by
GenoMax
142k
Many (most?) programs related to NGS data analysis produce non-deterministic output (unless they explicitly offer an option to produce dete…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
GenoMax
142k
For those samples it appears that raw data was not submitted. Just an assembly. $ esearch -db biosample -query SAMN08009548 | elink -…
Comment: How can I calculate the OS of each patient?
by
Pedro
• 0
**I have already tried this code. listSamples with HNSC cancer and smokers. I need at least one supporting material to find out the survi…
Comment: Filter Genome for Specific Sites
by
Anita
• 0
Great, thank you!
Comment: Filter Genome for Specific Sites
by
Anita
• 0
This is unhelpful and doesn't answer my question.
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
It seems that the authors in this paper have used paired-end sequences only for their analysis, and for that, they would also have used the…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
Thank you so much for helping me out in this! I have used most of the sequences that are found in this table. But, some samples like the…
Answer: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
GenoMax
142k
Looks like the samples are from this project: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA320483&o=acc_s%3Aa This table has the SR…
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