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BEAST and BEAGLE installed using conda environment, how to connect?
BEAST BEAUTI
updated 10 weeks ago by • 0 • written 5.4 years ago by ▴ 90
1
vote
2
replies
619
views
How can I Obtain hg38 cancer mutation and variation files
VCF SNV variation mutation
updated 7 months ago by ▴ 120 • written 7 months ago by ▴ 90
0
votes
1
reply
501
views
How to keep only first part of the name when adding AddOrReplaceReadGroups in multiple BAM files at a time?
SLURM BASH GATK Picard
13 months ago by kabir.deb ▴ 90
0
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0
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501
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Answer: Answer: How to keep only first part of the name when adding AddOrReplaceReadGroups in
13 months ago by kabir.deb ▴ 90
0
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0
replies
673
views
Comment: Comment: How to proceed with downstream analysis after tumor-only snp calling using Varsc
13 months ago by kabir.deb ▴ 90
0
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3
replies
673
views
How to proceed with downstream analysis after tumor-only snp calling using Varscan2?
snv compressing varscan bcftools
13 months ago by kabir.deb ▴ 90
0
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2
replies
640
views
How to save the output of VARSCAN results in different vcf names?
snv slurm output varscan
13 months ago by kabir.deb ▴ 90
0
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0
replies
640
views
Answer: Answer: How to save the output of VARSCAN results in different vcf names?
13 months ago by kabir.deb ▴ 90
0
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0
replies
401
views
Looking for ichorCNA tutorial for Tumor fraction estimation?
fraction ichorCNA cfDNA tumor HMMcopy
15 months ago by kabir.deb ▴ 90
0
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0
replies
440
views
Getting message while running generateMap.pl from hmmcopy_utils
cnv linux mappability hmmcopy_utils
17 months ago by kabir.deb ▴ 90
0
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1
reply
1.3k
views
Comment: Comment: How to join multiple large .tsv (> 20 GB, bed file) files by two identifier?
22 months ago by kabir.deb ▴ 90
0
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4
replies
1.3k
views
How to join multiple large .tsv (> 20 GB, bed file) files by two identifier?
bash Python R bed
updated 22 months ago by 45k • written 22 months ago by ▴ 90
0
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0
replies
1.1k
views
Comment: Comment: How to bin bed files (non-standard) into 10000bp window size?
2.0 years ago by kabir.deb ▴ 90
2
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2
replies
1.1k
views
How to bin bed files (non-standard) into 10000bp window size?
bedtools makewindows
updated 22 months ago by 45k • written 2.0 years ago by ▴ 90
0
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0
replies
2.2k
views
Comment: C: Error while reading mlc file from CODEML into ggtree/treeio in R
4.2 years ago by kabir.deb ▴ 90
0
votes
1
reply
1.9k
views
Masking and Parsing problem in Standalone BLAST 2.7.1?
blastdbcmd BLAST makeblastdb
updated 22 months ago by 45k • written 6.8 years ago by ▴ 90
0
votes
0
replies
968
views
Mutation Selection test FMutSel0-M0 (Null) FMutSel-M0 (Alternative) df=0, how to do Chi square test?
PAML CodeML
updated 5.2 years ago by 20 • written 5.4 years ago by ▴ 90
2
votes
1
reply
1.2k
views
How to solve "String index out of Range" problem in macse.jar
macse java
updated 22 months ago by 45k • written 5.4 years ago by ▴ 90
0
votes
0
replies
732
views
How to get genes with best Phylogenetic signal from multiple orthologous genes?
Phylogeny Orthologous Simulation
5.3 years ago by kabir.deb ▴ 90
0
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0
replies
3.4k
views
Answer: A: How to run beast.jar file using Slurm?
5.3 years ago by kabir.deb ▴ 90
5
votes
4
replies
3.4k
views
How to run beast.jar file using Slurm?
BEAST Phylogeny jar HPC Slurm
5.3 years ago by kabir.deb ▴ 90
2
votes
3
replies
4.2k
views
How to run 2 programme one after another using single SLURM?
SLURM parallel
updated 5.3 years ago by ★ 29k • written 5.4 years ago by ▴ 90
0
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1
reply
1.6k
views
Comment: C: How to remove internal stop codons from BUSCO identified orthologous genes?
5.4 years ago by kabir.deb ▴ 90
0
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3
replies
1.6k
views
How to remove internal stop codons from BUSCO identified orthologous genes?
BUSCO stopcodon remove
5.4 years ago by kabir.deb ▴ 90
0
votes
0
replies
1.1k
views
How to calculate rate of synonymous substitution at both 2 fold 4 fold degenerate sites
sequence evolution synonymous
5.4 years ago by kabir.deb ▴ 90
0
votes
0
replies
1.4k
views
How to calculate rate of synonymous substitution at 4 fold and 2 fold degenerate sites?
gene substitution PAML
updated 5.4 years ago by 166k • written 5.4 years ago by ▴ 90
0
votes
0
replies
824
views
How can I understand Codeml assigned Internal Branch Numbers To Phylogenetic Trees from mlc file?
PAML CodeMl
5.4 years ago by kabir.deb ▴ 90
0
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0
replies
2.1k
views
Answer: A: How to get aligned protein data from DNA sequences.
updated 5.4 years ago by 45k • written 5.8 years ago by ▴ 90
0
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1
reply
3.4k
views
Answer: A: running BUSCO on unknown genomes ?
5.5 years ago by kabir.deb ▴ 90
0
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1
reply
2.6k
views
Comment: A: How to analyse Eukaryotic genome by Comparative annotation toolkit (CAT) ?
5.8 years ago by kabir.deb ▴ 90
1
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3
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2.6k
views
How to analyse Eukaryotic genome by Comparative annotation toolkit (CAT) with BUSCO output?
alignment genome sequence sequencing
5.8 years ago by kabir.deb ▴ 90
1
vote
0
replies
20k
views
Answer: A: How Do I Translate Multiple (More Than 25000) Dna Sequences With Different Frame
updated 5.8 years ago by 87k • written 5.8 years ago by ▴ 90
0
votes
0
replies
5.3k
views
Comment: C: "OID not found" error with GI-list and preformatted nt BLAST database
5.8 years ago by kabir.deb ▴ 90
0
votes
0
replies
6.7k
views
Comment: A: How to Install Augustus properly ?
5.8 years ago by kabir.deb ▴ 90
1
vote
5
replies
6.7k
views
How to Install Augustus properly ?
Augustus Busco geneprediction
5.8 years ago by kabir.deb ▴ 90
8
votes
2
replies
2.8k
views
Embedding NCBI standalone Blast or SequenceServer in a Website
database arvixe mysql phpMyAdmin ncbiblast
updated 5.8 years ago by ★ 2.5k • written 8.7 years ago by ▴ 90
0
votes
0
replies
5.4k
views
Answer: A: How To Retrieve Hmmsearch Output Sequences From Target Database..
6.8 years ago by kabir.deb ▴ 90
0
votes
1
reply
4.1k
views
Comment: C: run_BUSCO.py running problem in UBUNTU-16.04?
6.8 years ago by kabir.deb ▴ 90
1
vote
3
replies
4.1k
views
run_BUSCO.py running problem in UBUNTU-16.04?
BUSCO pipebricks
6.8 years ago by kabir.deb ▴ 90
0
votes
1
reply
6.7k
views
Comment: A: How to Install Augustus properly ?
6.8 years ago by kabir.deb ▴ 90
0
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1
reply
5.6k
views
Comment: A: htslib installation problem
6.8 years ago by kabir.deb ▴ 90
5
votes
5
replies
5.6k
views
htslib installation problem
htslib Augustus Busco
6.8 years ago by kabir.deb ▴ 90
0
votes
1
reply
1.8k
views
Extraction of batch subject sequence from Blast result.
minus-strand blastdbcmd
updated 12 months ago by 45k • written 6.9 years ago by ▴ 90
0
votes
0
replies
5.0k
views
Comment: C: How to extract start codon and stop codon from a fasta of multiple protein codin
8.1 years ago by kabir.deb ▴ 90
0
votes
1
reply
5.0k
views
Comment: A: How to extract start codon and stop codon from a fasta of multiple protein codin
8.1 years ago by kabir.deb ▴ 90
0
votes
5
replies
5.0k
views
How to extract start codon and stop codon from a fasta of multiple protein coding genes !
start codon stop codon
8.1 years ago by kabir.deb ▴ 90
0
votes
1
reply
2.4k
views
GC Content and GC Skew are not showing in BRIG image
BRIG BLAST
8.2 years ago by kabir.deb ▴ 90
0
votes
1
reply
1.6k
views
Batch downloading of mitochondrial tRNAs from NCBI using Accession
mitochondrial-tRNA NCBI
updated 2.1 years ago by 45k • written 8.2 years ago by ▴ 90
5
votes
9
replies
6.3k
views
6 follow
splitting Multifasta File Into A *Smaller Multifasta File containing few sequence
multifasta split small multifasta
updated 8.4 years ago by ▴ 180 • written 8.4 years ago by ▴ 90
0
votes
0
replies
6.3k
views
Answer: A: splitting Multifasta File Into A *Smaller Multifasta File containing few sequenc
8.4 years ago by kabir.deb ▴ 90
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