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Answer: Answer: How to prepare a bam file containing reads of same length?
updated 19 months ago by 43k • written 8.7 years ago by 12k
3
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0
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1.6k
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Answer: Answer: How to include each steps in the bam header
updated 19 months ago by 43k • written 8.7 years ago by 12k
0
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1
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2.1k
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Answer: Answer: mapping quality for sanger reads
updated 18 months ago by 43k • written 8.7 years ago by 12k
4
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1
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6.0k
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Answer: Answer: Mouse strains and Reference genome choice
updated 18 months ago by 43k • written 8.7 years ago by 12k
1
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1
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2.4k
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Answer: Answer: Remove/Identify pseudogenes from a list of Entrez IDs programatically
updated 18 months ago by 43k • written 8.8 years ago by 12k
6
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1
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9.9k
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Answer: Answer: How to remove a chr from a bam file?
updated 17 months ago by 43k • written 8.8 years ago by 12k
2
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1
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3.8k
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Answer: Answer: Genotyping from RNA-Seq: how to recalibrate mapping quality scores in BAM file?
updated 17 months ago by 43k • written 8.8 years ago by 12k
0
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0
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4.0k
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Answer: Answer: Recommended biology/genomics book for computer scientist students
updated 17 months ago by 43k • written 8.8 years ago by 12k
2
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2
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2.9k
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Answer: Answer: Does the BAM need to be sorted by name (sort -n) for DESeq2 pipeline?
updated 17 months ago by 43k • written 8.8 years ago by 12k
1
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1
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17k
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Answer: Answer: Small SAM Examples
updated 17 months ago by 43k • written 8.8 years ago by 12k
5
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0
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9.5k
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Answer: Answer: Parsing a SAM file efficiently
updated 17 months ago by 43k • written 8.8 years ago by 12k
2
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1
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2.0k
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Answer: A: How to get DEPTH, as well as variant calling of transcriptome data
8.8 years ago by Ashutosh Pandey 12k
3
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1
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7.4k
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Answer: Answer: Find mates between all alignments in a SAM file
updated 17 months ago by 43k • written 8.8 years ago by 12k
4
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1
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4.0k
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Answer: Answer: Question about Details in Picard MarkDuplicates
updated 16 months ago by 43k • written 8.9 years ago by 12k
3
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0
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4.4k
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Answer: Answer: mm9 gene names to mm10
updated 16 months ago by 43k • written 8.9 years ago by 12k
0
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1
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7.0k
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Answer: Answer: Modifying fasta file based on vcf information
updated 16 months ago by 43k • written 8.9 years ago by 12k
5
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2
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12k
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Answer: Answer: Split Read in Samtools
updated 16 months ago by 43k • written 8.9 years ago by 12k
1
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1
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2.4k
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Answer: Answer: Determine mutational profile from a BAM file?
updated 15 months ago by 43k • written 8.9 years ago by 12k
1
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1
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2.8k
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Answer: Answer: Filter paired reads from samtools
updated 15 months ago by 43k • written 9.0 years ago by 12k
1
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1
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1.8k
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Answer: Answer: Extract variability between coordinates
updated 15 months ago by 43k • written 9.0 years ago by 12k
1
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1
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7.1k
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Answer: Answer: Same sample with seperete bam files
updated 23 months ago by 43k • written 9.0 years ago by 12k
2
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1
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2.7k
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Answer: Answer: high mapping quality (MAPQ=42) of unmapped.sam
updated 15 months ago by 43k • written 9.0 years ago by 12k
2
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0
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3.6k
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Answer: Answer: Does HTseq remove duplicates marked by Picard tools?
updated 15 months ago by 43k • written 9.0 years ago by 12k
1
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1
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3.3k
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Answer: Answer: large bam file and get small mpileup file
updated 15 months ago by 43k • written 9.0 years ago by 12k
1
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2
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3.3k
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Answer: Answer: how to modify sam file sort order
updated 15 months ago by 43k • written 9.0 years ago by 12k
4
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1
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1.8k
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Answer: Answer: Substitute first column based on second column
updated 24 months ago by 43k • written 9.0 years ago by 12k
1
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0
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2.3k
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Answer: Answer: Help Parsing vcf for indels and splice sites
updated 22 months ago by 43k • written 9.0 years ago by 12k
3
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0
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2.3k
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Answer: Answer: a question about sharing the ucsc custom track to other people
updated 22 months ago by 43k • written 9.0 years ago by 12k
3
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3
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4.5k
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Answer: Answer: retrieval of upstream non-coding sequences
updated 22 months ago by 43k • written 9.0 years ago by 12k
2
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1
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1.4k
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Answer: Answer: Accurate position for a gene
updated 22 months ago by 43k • written 9.0 years ago by 12k
1
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0
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11k
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Answer: Answer: DAVID: functional annotation chart result explanation
updated 22 months ago by 43k • written 9.1 years ago by 12k
5
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2
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23k
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Answer: Answer: Lift-over on a VCF
updated 22 months ago by 43k • written 9.1 years ago by 12k
1
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0
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6.1k
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Answer: Answer: Amino acid Changes Substitution score
updated 22 months ago by 43k • written 9.1 years ago by 12k
2
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1
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2.0k
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Answer: Answer: Another way to identify of the library type your data
updated 22 months ago by 43k • written 9.1 years ago by 12k
0
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0
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3.9k
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Answer: Answer: importance of known sites/resources in GATK pipeline
updated 2.0 years ago by 43k • written 9.1 years ago by 12k
2
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0
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2.4k
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Answer: Answer: Where to obtain a gene rpkm matrix for mouse (from mouse encode)
updated 23 months ago by 43k • written 9.1 years ago by 12k
0
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0
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3.0k
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Answer: Answer: How to get SAMRecord from bam. file with specified readGroupId, referenceId, seq
updated 23 months ago by 43k • written 9.1 years ago by 12k
1
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0
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2.4k
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Answer: Answer: Merging pe and contig alignments with Samtools
updated 24 months ago by 43k • written 9.2 years ago by 12k
3
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1
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1.7k
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Answer: Answer: meaning of ./. and 2/0 in SnpEff annotation file
updated 24 months ago by 43k • written 9.2 years ago by 12k
1
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1
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6.7k
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Answer: Answer: How to extract properly paired alignments from a bam file using samtools?
updated 2.0 years ago by 43k • written 9.2 years ago by 12k
2
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0
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6.4k
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Answer: Answer: Bowtie2 local alignment SAM file SEQ output - reverse complement or not ?
updated 2.0 years ago by 43k • written 9.2 years ago by 12k
8
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1
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1.9k
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Answer: Answer: Basic understanding of genome sequences
updated 2.0 years ago by 43k • written 9.2 years ago by 12k
1
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1
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2.9k
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Answer: Answer: What are the steps to extract a particular sequence from a WGS raw read
updated 2.0 years ago by 43k • written 9.2 years ago by 12k
1
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2
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70k
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Answer: Answer: combining fasta files
updated 2.1 years ago by 43k • written 9.3 years ago by 12k
0
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1
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3.4k
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Answer: Answer: generate .bai files in windows system
updated 2.2 years ago by 43k • written 9.4 years ago by 12k
2
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0
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4.2k
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Answer: Answer: TO BLAST LARGE QUERY SEQUENCE AT ONE TIME
updated 2.2 years ago by 43k • written 9.4 years ago by 12k
4
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1
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3.9k
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Answer: Answer: Perplexing Bowtie 2 results
updated 2.2 years ago by 43k • written 9.5 years ago by 12k
0
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1
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2.0k
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Answer: Answer: Bioawk: multiple criteria
updated 2.2 years ago by 43k • written 9.5 years ago by 12k
5
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3
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11k
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Answer: Answer: How to generate a .sam/.bam file of a particular chromosome or even a particular
updated 2.2 years ago by 43k • written 9.5 years ago by 12k
2
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0
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9.0k
views
Answer: Answer: fastx toolkit problem: fastq to fasta
updated 2.2 years ago by 43k • written 9.5 years ago by 12k
384 results • Page 2 of 8
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