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 : this month
all time
today
this week
this month
this year
555 results • Page
2 of 12
Sort: Views
Rank
Views
Votes
Replies
3
votes
7
replies
1.6k
views
align_and_estimate_abundance error Trinty
align_and_estimate_abundance
RNA-SEQ
RSEM
Trinity
updated 21 days ago by
Ram
39k • written 20 months ago by
Princy
▴ 60
0
votes
0
replies
1.6k
views
mothur - stability.files does not contain sample group names
mothur
software-error
updated 21 days ago by
Ram
39k • written 5.8 years ago by
pjdavis
▴ 20
0
votes
1
reply
1.6k
views
project_tree_builder.exe not found, problem in configuring build tree of NCBI c++ toolkit
cpp
toolkit
blast
NCBI
updated 14 days ago by
Ram
39k • written 7.4 years ago by
arfaj a
▴ 10
5
votes
5
replies
1.6k
views
bio-newbie / gene research / tools and methods
methods
research
gene
updated 18 days ago by
Ram
39k • written 5.4 years ago by
wizofe
• 0
4
votes
8
replies
1.6k
views
How to extract promoter sequences from a plant draft genome?
promoter
genome
updated 3 days ago by
Ram
39k • written 3.7 years ago by
Kumar
▴ 100
1
vote
3
replies
1.5k
views
Using SeqAn and other external libraries in C++
Read-Mapping
SeqAn
updated 19 days ago by
Ram
39k • written 5.6 years ago by
anshupa.vssut
▴ 50
4
votes
6
replies
1.5k
views
Why weblogo of biopython doesn't work?
Biopython
Weblogo
updated 4 days ago by
minakshiboruahassam
• 0 • written 9 months ago by
Plus
▴ 20
0
votes
3
replies
1.5k
views
Converting a mutation data file into vcf?
next-gen-sequencing
exome
updated 24 days ago by
Ram
39k • written 6.0 years ago by
prathyushakonda
▴ 20
0
votes
0
replies
1.5k
views
how to detect the presence of Integrative and conjugative elements in bacterial genome.
Genomics
updated 20 days ago by
Ram
39k • written 5.7 years ago by
Optimist
▴ 180
1
vote
4
replies
1.5k
views
Time series event recurrence comparison
recurrence
time-series
updated 6 days ago by
Ram
39k • written 6.7 years ago by
Nicolas Rosewick
10k
2
votes
7
replies
1.5k
views
Technology Stack of NCBI (Genbank, GEO, etc.)
sequence
ncbi
gene
genbank
updated 14 days ago by
Ram
39k • written 5.2 years ago by
navela78
▴ 70
0
votes
1
reply
1.5k
views
Why does shoremap calculate allele frequency this way?
shoremap
allele-frequency
updated 19 days ago by
Ram
39k • written 5.7 years ago by
emilywynn6
▴ 10
5
votes
4
replies
1.5k
views
Detection of DE genes among different tissues of an organism during time - RNA seq
detection
DE-genes
multi-treatments
time-series
updated 6 days ago by
Ram
39k • written 6.9 years ago by
statfa
▴ 720
0
votes
0
replies
1.5k
views
CD-hit records matching and parsing
bash
python
cd-hit
text-processing
updated 10 days ago by
Ram
39k • written 4.3 years ago by
mnmalash
• 0
0
votes
5
replies
1.5k
views
terminal can't activate base automatically (conda)
conda
updated 25 days ago by
Ram
39k • written 21 months ago by
Binghong
▴ 20
0
votes
5
replies
1.4k
views
Best Blast Hits from Tabular Outputs in Multiple files
python
shell
blast
updated 19 days ago by
Ram
39k • written 5.7 years ago by
trini1god
• 0
1
vote
2
replies
1.4k
views
Getting full list for DEGs in Noiseq
RNA-Seq
updated 18 days ago by
Ram
39k • written 5.4 years ago by
mubangafchama
▴ 10
0
votes
0
replies
1.4k
views
envelope and alignment coordinates in hmmsearch result
hmmer
sequence
alignment
hmmsearch
updated 10 days ago by
Ram
39k • written 4.4 years ago by
sanjeet00001992
• 0
1
vote
3
replies
1.4k
views
How to check quality of multiple sequence alignment (MSA)?
MSA
multiple-sequence-alignment
R
updated 20 days ago by
Ram
39k • written 3.2 years ago by
Chirag Parsania
★ 2.0k
1
vote
3
replies
1.4k
views
Is there any tool available for sequence alignment concatenation and supermatrix file generation other than Fastconcat-G?
Assembly
alignment
software-error
updated 15 hours ago by
Ram
39k • written 3.6 years ago by
Kumar
▴ 100
2
votes
4
replies
1.4k
views
Gettin Consensus From Multiple Whole Genomes
multiple-sequence-alignment
whole-genome-alignment
updated 20 days ago by
Ram
39k • written 6.4 years ago by
nilaylale88
• 0
0
votes
3
replies
1.4k
views
SNPEff not showing SNP
snpEff
variant-annotation
SNP
updated 14 days ago by
Ram
39k • written 5.1 years ago by
sanjay.bpkihs
• 0
1
vote
3
replies
1.4k
views
Alignment of two different file format
alignment
updated 20 days ago by
Ram
39k • written 5.8 years ago by
amoolya36
• 0
6
votes
7
replies
1.4k
views
Bioinformatics Master Project With More Focus on Developing Algorithm and Software
Masters
Algorithm
Software
updated 24 days ago by
Ram
39k • written 6.0 years ago by
nilo
▴ 90
0
votes
1
reply
1.4k
views
Extract sequence subset from multiple sequence alignment based on position in a specific species.
R
Biostrings
msa
updated 25 days ago by
rohitsatyam102
▴ 690 • written 2.6 years ago by
nad7wf
• 0
0
votes
0
replies
1.4k
views
How to use SABmark 1.65 as a benchmark?
multiple-sequence-alignment
SABmark
updated 20 days ago by
Ram
39k • written 6.7 years ago by
Jay
• 0
0
votes
1
reply
1.4k
views
Pipeline for scRNA-Seq
next-gen
R
RNA-Seq
updated 19 days ago by
Ram
39k • written 5.6 years ago by
alpha09
▴ 10
1
vote
5
replies
1.3k
views
WGCNA Co-expression network analysis on cuffdiff output
wgcna
cuffdiff
updated 12 days ago by
Ram
39k • written 4.7 years ago by
sbb
▴ 10
0
votes
2
replies
1.3k
views
How to perform statistical analysis of label free experiment using results from Proteome Discoverer?
Proteome-Discoverer
Label-Free
Proteomics
updated 18 hours ago by
Ram
39k • written 4.5 years ago by
k2bhide
▴ 80
0
votes
4
replies
1.3k
views
File not found error on program installation.
samtools
htslib
Cpp
updated 14 days ago by
Ram
39k • written 3.6 years ago by
M.O.L.S
▴ 100
0
votes
3
replies
1.3k
views
Cannot open BAM files with the SeqAn library
cpp
seqan
Bam
sequencing
updated 14 days ago by
Ram
39k • written 5.2 years ago by
omariqbal2017
• 0
1
vote
1
reply
1.3k
views
Can HISAT2 be invoked in bash shell, and can it be fed variables or names with wildcards as inputs?
Bash
Shell
HISAT2
updated 10 days ago by
Ram
39k • written 4.3 years ago by
RNAseqer
▴ 240
3
votes
5
replies
1.3k
views
Trouble with best practices
samtools
WES
NGS
GATK
updated 17 days ago by
Ram
39k • written 5.3 years ago by
erarroji
• 0
3
votes
8
replies
1.3k
views
Kallisto mapping paired end
Kallisto
mapping
updated 24 days ago by
Ram
39k • written 15 months ago by
Dk
▴ 20
0
votes
0
replies
1.3k
views
Human Breast Cancer Panel QIAseq manifest
manifest
panel
updated 21 days ago by
Ram
39k • written 5.9 years ago by
fabbri.marco
▴ 10
1
vote
0
replies
1.3k
views
NCBI Taxon ID to IMG Genome IDs
taxon
html
updated 4 days ago by
Ram
39k • written 3.9 years ago by
Mohak
▴ 20
0
votes
4
replies
1.3k
views
How can I extract position information from multiple alignment format?
CLUSTAL
MAFFT
multiple-alignment
updated 20 days ago by
Ram
39k • written 3.3 years ago by
haewon
• 0
2
votes
4
replies
1.3k
views
hisat2 SyntaxError: invalid syntax
alignment
hisat2
updated 21 days ago by
Ram
39k • written 19 months ago by
Xiaoyun
▴ 10
3
votes
4
replies
1.3k
views
fastPHASE -F provided to estimate haplotype frequencies, but no freqs in output
genomics
phasing
fastPHASE
updated 14 days ago by
Ram
39k • written 5.2 years ago by
lakemonster
▴ 10
0
votes
0
replies
1.3k
views
Cuffdiff with 2 conditions and time series
cuffdiff
time-series
RNA-Seq
transcriptome
updated 6 days ago by
Ram
39k • written 6.2 years ago by
KL
• 0
1
vote
0
replies
1.2k
views
Align two single cell experiments
R
single-cell
updated 11 days ago by
Ram
39k • written 4.5 years ago by
elb
▴ 230
2
votes
3
replies
1.2k
views
mutational signatures in different tumor samples
somatic mutation
mutational signature
updated 4 days ago by
Vincent Laufer
★ 2.9k • written 4.4 years ago by
lzy
▴ 20
0
votes
1
reply
1.2k
views
Best tool for bacterial genomic island prediction?
genome
genomic-island
updated 5 days ago by
Ram
39k • written 4.0 years ago by
Kumar
▴ 100
0
votes
3
replies
1.2k
views
Ensemble file Mus_musculus.GRCm38.dna.primary_assembly.fa.gz unzipping to incorrect contents
genome
RSEM
Ensembl
updated 21 days ago by
Ram
39k • written 19 months ago by
jennifer.conrad84
▴ 10
0
votes
0
replies
1.2k
views
Counting the number of paralogues for mouse genes gives me the wrong frequency
ensembl
R
biomart
updated 18 days ago by
Ram
39k • written 5.4 years ago by
up728920
• 0
4
votes
5
replies
1.2k
views
Distributed / parallel computing in bioinformatics
distributed-computing
updated 21 days ago by
Ram
39k • written 5.9 years ago by
CY
▴ 710
1
vote
0
replies
1.2k
views
sequence alignment using edlib c++ library
cpp
alignment
updated 14 days ago by
Ram
39k • written 4.8 years ago by
BDK_compbio
▴ 140
0
votes
4
replies
1.1k
views
No space separating sequence and name PopArt error !?
popart
traits
haplotypes
python
updated 24 days ago by
Ram
39k • written 2.1 years ago by
matache.razvan911
• 0
0
votes
0
replies
1.1k
views
EDGE microarray time series analysis fit_models() ERROR
microarray
time-series
updated 6 days ago by
Ram
39k • written 5.4 years ago by
tleona3
▴ 10
0
votes
0
replies
1.1k
views
Open source projects for canine genomics?
canine-genomics
genomics
updated 20 days ago by
Ram
39k • written 5.8 years ago by
mdbiofx
• 0
555 results • Page
2 of 12
Recent Votes
Answer: Assigned taxonomy after dada2 only "NAs" or "Mitochondria"
Comment: Getting Pairwise Sequence Alignment Score With Biopython
C: How does salmon deal with decoy?
A: How does salmon deal with decoy?
A: How does salmon deal with decoy?
Comment: Italicise annotations with pheatmap
Visualizing Graph Alignment Format via minigraph
Recent Locations •
All
France,
just now
China,
just now
Sweden,
just now
Finland,
1 minute ago
Germany,
2 minutes ago
United Kingdom,
5 minutes ago
France/Nantes/Institut du Thorax - INSERM UMR1087,
5 minutes ago
Recent Awards •
All
Popular Question
to
Chris
▴ 100
Popular Question
to
Andrzej Zielezinski
11k
Scholar
to
F.Bedjou
▴ 10
Popular Question
to
v.berriosfarias
▴ 90
Teacher
to
Charles Plessy
★ 2.9k
Teacher
to
swbarnes2
13k
Popular Question
to
rogerdavis2609
▴ 20
Recent Replies
Comment: Help with running ATAC using Encode pipeline
by
Chris
▴ 100
Sure, here is my json file, I have 8 fastq files: { "atac.title" : “atac)”, "atac.description" : “Encode”, …
Comment: Differential protein expression analysis
by
dsull
★ 4.2k
Yes, you need to log-transform. I've had a good experience using limma for proteomics analyses (limma uses a moderated t-test).
Answer: Assigned taxonomy after dada2 only "NAs" or "Mitochondria"
by
mattze731
▴ 10
Never mind. Someone had put all the 16S files into the ITS folder and vice versa. After using the 16S dada2 pipeline on the actual 16S file…
Comment: Getting Pairwise Sequence Alignment Score With Biopython
by
Jonathan Lefebre
▴ 70
Dear Alexander, to answer 2) first: This is just a fasta file that you can obtain essentially from every multiple sequence alignment soft…
Comment: Stratified sample assignment for analysis
by
ATpoint
72k
Batches for what? Processing/sequencing, what data are we talking about? If this is indeed paired then you basically must keep samples of a…
Answer: Visualizing Graph Alignment Format via minigraph
by
colindaven
4.8k
That's a really good question. Short version: not much to my knowledge, aside from looking at it, or filtering it (as it's a PAF like forma…
Comment: Alignment of case vs. control from different origin
by
i.sudbery
17k
BTW - Most TCGA cancer types do have normals amoungst the samples.
Comment: Alignment of case vs. control from different origin
by
i.sudbery
17k
The assumption of these studies is that any batch effect within a batch affects both treatment and control equally, so that when you divide…
Answer: Stratified sample assignment for analysis
by
Vincent Laufer
★ 2.9k
First, you didn't tell us what kind of data you are working with. For arguments sake, I'll assume bulk RNA-seq. Generally, your options …
Comment: VEP tab/vcf - Different output
by
Ben_Ensembl
★ 2.2k
You can use the ---show_ref_allele flag when running the VEP query. This will add the reference allele in the output and is mainly useful f…
Comment: Get relationships and hierarchies for GO terms
by
Alexander
▴ 70
For R-users might be interesting to look at notebook "CAFA5: train set GO terms" https://www.kaggle.com/code/antoninadolgorukova/cafa5-trai…
Comment: Getting Pairwise Sequence Alignment Score With Biopython
by
Alexander
▴ 70
Thanks for sharing ! Just these days I am trying to wrap my mind on protein alignments. I wonder: 1) "PID" in your post is "percentage o…
Answer: What kind of statistical test does Cellranger count use?
by
fracarb8
▴ 950
You should read the [cellranger documentation][1] to understand how the analysis are performed. For example, it uses `graphclust` for clust…
Answer: Gene prediction software
by
alexandru.bologa.marian
▴ 40
Hi, I don't know if there are tools designed to predict pseudogenes, but If i understand correctly from your post you could predict all th…
Answer: Getting Pairwise Sequence Alignment Score With Biopython
by
Jonathan Lefebre
▴ 70
Maybe quite late, but in case other people are looking for this. Pairwise sequence identity can be easily calculated using basic python fun…
Traffic: 2407 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