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How to limit/filter BLAST results using NcbiblastnCommandline
biopython ncbiblastncommandline blast
updated 4.2 years ago by 20 • written 7.4 years ago by ▴ 40
1
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1
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1.0k
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Answer: A: BadProteinStart errors when uploading PGAP .sqn file to NCBI
4.5 years ago by yarmda ▴ 40
2
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3
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1.0k
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BadProteinStart errors when uploading PGAP .sqn file to NCBI
ncbi annotation pgap sequin
4.5 years ago by yarmda ▴ 40
0
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0
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1.0k
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Comment: C: BadProteinStart errors when uploading PGAP .sqn file to NCBI
4.5 years ago by yarmda ▴ 40
3
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6
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2.2k
views
biopython esearch not giving all children taxIDs
biopython ncbi entrez
updated 6.4 years ago by • 0 • written 7.4 years ago by ▴ 40
0
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1
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1.8k
views
What does BLAST command line - gilist option refer to?
NCBI BLAST gi number
updated 6.4 years ago by 22k • written 6.4 years ago by ▴ 40
4
votes
7
replies
6.2k
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Pulling out SNPs from a BAM file compared to the reference based on a list of targeted SNPs
bam samtools bedtools SNP
updated 7.1 years ago by 20 • written 8.2 years ago by ▴ 40
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0
replies
4.3k
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Comment: C: Maximum number of efetch
7.3 years ago by yarmda ▴ 40
0
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1
reply
1.6k
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NCBIXML parser get hit sequence
biopython blast ncbixml parse
updated 7.4 years ago by 165k • written 7.4 years ago by ▴ 40
0
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1
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1.8k
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Biopython BLAST or Blast parser returns "no"
BLAST biopython NCBIXML SearchIO
updated 7.4 years ago by 165k • written 7.4 years ago by ▴ 40
0
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1
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2.2k
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Comment: C: biopython esearch not giving all children taxIDs
7.4 years ago by yarmda ▴ 40
0
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1
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12k
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Comment: C: Refseq Proteins For A Given Taxid
7.4 years ago by yarmda ▴ 40
0
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1
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4.8k
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Comment: C: Command line to download fasta sequences from PATRIC DB
7.4 years ago by yarmda ▴ 40
0
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1
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4.8k
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Comment: C: Command line to download fasta sequences from PATRIC DB
7.4 years ago by yarmda ▴ 40
3
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6
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4.8k
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Command line to download fasta sequences from PATRIC DB
patric
updated 23 months ago by 44k • written 7.4 years ago by ▴ 40
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0
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7.1k
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Comment: C: How to generate a multiple HMM file with HMMER?
7.7 years ago by yarmda ▴ 40
5
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4
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7.1k
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How to generate a multiple HMM file with HMMER?
HMMER MSA Stockholm
updated 7.7 years ago by 5.3k • written 7.7 years ago by ▴ 40
3
votes
5
replies
4.4k
views
Trouble with bedtools groupby - not summarizing by columns
bedtools groupby sort bam
updated 7.8 years ago by ▴ 90 • written 8.2 years ago by ▴ 40
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0
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1.4k
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Comment: C: How to extract only continuously aligned reads from a SAMfile
7.8 years ago by yarmda ▴ 40
0
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1
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1.4k
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Comment: C: How to extract only continuously aligned reads from a SAMfile
7.8 years ago by yarmda ▴ 40
0
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4
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1.4k
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How to extract only continuously aligned reads from a SAMfile
samtools sam alignment
7.8 years ago by yarmda ▴ 40
0
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0
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8.7k
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Comment: C: bedtools: extracting no coverage regions
8.1 years ago by yarmda ▴ 40
0
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1
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5.6k
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Comment: C: How best to parse samtools mpileup results?
8.1 years ago by yarmda ▴ 40
0
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0
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5.6k
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Comment: C: How best to parse samtools mpileup results?
8.1 years ago by yarmda ▴ 40
0
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1
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5.6k
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Comment: C: How best to parse samtools mpileup results?
8.1 years ago by yarmda ▴ 40
0
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1
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5.6k
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Comment: C: How best to parse samtools mpileup results?
8.1 years ago by yarmda ▴ 40
0
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0
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5.6k
views
Comment: C: How best to parse samtools mpileup results?
8.1 years ago by yarmda ▴ 40
0
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1
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5.6k
views
Comment: C: How best to parse samtools mpileup results?
8.1 years ago by yarmda ▴ 40
9
votes
13
replies
5.6k
views
How best to parse samtools mpileup results?
samtools mpileup vcf vcftools
updated 8.1 years ago by 165k • written 8.1 years ago by ▴ 40
0
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0
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5.6k
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Comment: C: How best to parse samtools mpileup results?
8.1 years ago by yarmda ▴ 40
0
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1
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2.4k
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Comment: C: Variant calling - display nucleotides with 0 coverage
8.2 years ago by yarmda ▴ 40
0
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1
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2.4k
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Comment: C: Variant calling - display nucleotides with 0 coverage
8.2 years ago by yarmda ▴ 40
0
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5
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2.4k
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Variant calling - display nucleotides with 0 coverage
samtools bcftools mpileup vcf bcf
8.2 years ago by yarmda ▴ 40
0
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0
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4.4k
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Comment: C: Trouble with bedtools groupby - not summarizing by columns
8.2 years ago by yarmda ▴ 40
0
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1
reply
6.2k
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Comment: C: Pulling out SNPs from a BAM file compared to the reference based on a list of ta
8.2 years ago by yarmda ▴ 40
0
votes
2
replies
6.2k
views
Comment: C: Pulling out SNPs from a BAM file compared to the reference based on a list of ta
8.2 years ago by yarmda ▴ 40
0
votes
0
replies
2.6k
views
Comment: C: Finding pre defined SNPs with bedtools
8.2 years ago by yarmda ▴ 40
0
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0
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2.6k
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Comment: C: Finding pre defined SNPs with bedtools
8.2 years ago by yarmda ▴ 40
0
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1
reply
2.0k
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Comment: C: For loop that continues finding matches in a file
8.2 years ago by yarmda ▴ 40
0
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1
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2.0k
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Comment: C: For loop that continues finding matches in a file
8.2 years ago by yarmda ▴ 40
0
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1
reply
2.0k
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Comment: C: For loop that continues finding matches in a file
8.2 years ago by yarmda ▴ 40
0
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1
reply
2.0k
views
Comment: C: For loop that continues finding matches in a file
8.2 years ago by yarmda ▴ 40
0
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9
replies
2.0k
views
For loop that continues finding matches in a file
pysam python fastq loop
updated 8.2 years ago by 47k • written 8.2 years ago by ▴ 40
2
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1
reply
4.5k
views
pysam fetch with partial reference name
bam python pysam
updated 23 months ago by 44k • written 8.3 years ago by ▴ 40
0
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0
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4.7k
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Comment: C: How to retrieve any and all NCBI/GenBank accession numbers from a Taxonomy ID?
8.3 years ago by yarmda ▴ 40
0
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1
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4.7k
views
Comment: C: How to retrieve any and all NCBI/GenBank accession numbers from a Taxonomy ID?
8.3 years ago by yarmda ▴ 40
0
votes
6
replies
4.7k
views
How to retrieve any and all NCBI/GenBank accession numbers from a Taxonomy ID?
ncbi efetch accession-number taxid
updated 22 months ago by 44k • written 8.3 years ago by ▴ 40
0
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0
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4.7k
views
Comment: C: How to retrieve any and all NCBI/GenBank accession numbers from a Taxonomy ID?
8.3 years ago by yarmda ▴ 40
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