Discussions

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  Detected a *potential* strand bias > 1% in an unstranded protocol

  kumarage asked Apr 21, 2024 in Q&A (single-cell specific) · Unanswered

  

  

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  After using SAMtools to convert bam to fastq, the salmon quantification mapping rate is super low: is it normal?

  KOBE24DUNK asked Jan 27, 2024 in Q&A (bulk specific) · Unanswered

  

  

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  Sampling from the posterior (Gibbs and Bootstrap)

  Ray6283 asked Nov 6, 2023 in Q&A (bulk specific) · Unanswered

  

  

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  Equivalence classes

  Ray6283 asked Nov 2, 2023 in Q&A (bulk specific) · Closed · Unanswered

  

  

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  Salmon quantification of isoforms of a single gene

  alhbiostat asked May 3, 2023 in Q&A (bulk specific) · Unanswered

  

  

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  Alignment process

  David8390 asked Oct 30, 2023 in Q&A (bulk specific) · Unanswered

  

  

  

  

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  Questions about install

  liujam2001 started Oct 27, 2023 in General

  

  

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  custom / targeted sequencing panel

  CynStr asked Oct 26, 2023 in Q&A (bulk specific) · Unanswered

  

  

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  Fragment Library Types

  Ray6283 asked Oct 26, 2023 in Q&A (bulk specific) · Unanswered

  

  

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  #️⃣

  Fragment assignments to transcripts

  Ray6283 asked Oct 16, 2023 in FAQ · Closed · Unanswered

  

  

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  Equivalence class file

  Ray6283 asked Oct 11, 2023 in Q&A (bulk specific) · Answered

  

  

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  using composite transcriptome

  dannynielsen0 started Oct 19, 2023 in General

  

  

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  salmon alignment mode

  aswathysheena asked Oct 16, 2023 in Q&A (bulk specific) · Unanswered

  

  

  

  

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  Fragment assignments to transcripts

  Ray6283 asked Oct 17, 2023 in Q&A (single-cell specific) · Answered

  

  

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  Fragment-GC bias files

  Ray6283 asked Oct 13, 2023 in Q&A (bulk specific) · Unanswered

  

  

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  Fragment-GC bias files

  Ray6283 asked Oct 13, 2023 in Q&A (bulk specific) · Closed · Unanswered

  

  

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  Equivalenece classe file

  Ray6283 started Oct 11, 2023 in General · Closed

  

  

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  Running Salmon - AWS AMI Scaling Groups

  ChristopherLeach123 asked Jul 20, 2022 in Q&A (bulk specific) · Unanswered

  

  

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  Accessing the read-level matrix from Alevin

  rob-p asked May 26, 2022 in Q&A (single-cell specific) · Unanswered

  

  

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  Feature Request: flexible handling of additional single-cell technologies / library types?

  wagnerde started Jul 8, 2020 in Ideas

  

  

  

  

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  Old vs New Velocity Tutorial

  ACastanza asked Nov 6, 2021 in Q&A (single-cell specific) · Unanswered

  

  

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  #️⃣

  Strange shell error when using custom geometry

  rob-p asked Mar 9, 2022 in FAQ · Unanswered

  

  

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  Is there a minimum read count or number of genes for Salmon bias correction?

  rob-p asked Feb 17, 2022 in Q&A (bulk specific) · Unanswered

  

  

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  Building salmon index

  MarkiMarki started Feb 16, 2022 in General

  

  

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  Forcefully gene quantfication with libtype "ISR" from unstranded library for Differential expression analysis

  daniazi asked Jan 29, 2022 in Q&A (bulk specific) · Unanswered

  

  

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