Previous Versions
Space Ranger 4.0.1 (Jun 12, 2025)
tar.gz compression
Download for Linux 64-bit (tar.gz)File size: 885 MBmd5sum: b0beb100947717cee8c7ad0d7a9f0247curlwgetcurl -o spaceranger-4.0.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-4.0.1.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=D3qvKIZUNTVkzYZCEXmzXAUgQkj2JrinNtDbTfJ-X0Z77G0UQlW3u52UYbdpDz60oraaN5hAvu1gl4tYOel10BK9sFF3pxUsfDHl4HFGns2x~6tSr63F5I-RJ0ofDRmIRAaKf-FYMfySFuoq1TjsbpREPet6GEgTNn4ve81FyuvIzGAJ8dnDJZ3546G0ILrIel59lGOo8mjweK42zsFNb~Q0t51r3dHVJoIME3wUkk5Y1L~zdeW7ElMc--cBHUkuYu2BBrooxm7uaIP3WYIyH6j6uOSPchGyPmUPlEwiC4xEyMQnq-xtDOJ9R~uUSyqONazmmk4XqvMqhnH5C6xN7g__"tar.xz compression
Download for Linux 64-bit (tar.xz)File size: 582 MBmd5sum: 3610ff948a6f8129cf49509f1bb34970curlwgetcurl -o spaceranger-4.0.1.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-4.0.1.tar.xz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=DWXSQVznPJXdcDgCKZu1Py~F4dMQqfzk4~4Ikwqdm2~AVGt-xEirfP05JH4oSFQkeqq4I~N--k~DNdjcDoSUL05Q51qd9q1jg1p4ENVne1s5AybkOLcYylMHSfwvbKKPsg1J2~O-Dz7jPP7ig1UEaNdFfFCzIZ~-L6AlbexDzPRyEgpmWSViNaPWfuaYxcN8x2d~fBFkm6KHbnANJUmHaoZwhvFyCOwmjPvldxs6wRpveYNunaZo40re5FCG~ltwGQ-2030a4LhCQMtlSV03r8-uSro4emQwPTP0B9svGvkB~0iI8MnBqrtJUcOtL4K9WbhxtUb2v0Mow26Ujkt9Rw__"
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Space Ranger v4.0.1 highlights
- Space Ranger v4.0 now supports Visium HD 3' Gene Expression!
- Cell and nucleus segmentation are now included for Visium HD and Visium HD 3' data with H&E images.
- Space Ranger v4.0 now features a new UMI-based registration algorithm for Visium HD and Visium HD 3' data.
- Starting with v4.0, anonymized telemetry data is collected and sent to 10x Genomics.
Space Ranger 3.1.3 (Feb 6, 2025)
tar.gz compression
Download for Linux 64-bit (tar.gz)File size: 829 MBmd5sum: 2cc7128cd538108d2a8a737ec54df484curlwgetcurl -o spaceranger-3.1.3.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.3.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=Cr0i8uxlh7CqWSBVSQxce50Nb8~N7djmtAJ0a5xMjPZW5I2byyZi4ExT1yyDyxplSo8w6ERMDojVOhM7HMvFNF05MokNdAC4-nQKfvH1aBd95mH4wlinDNXgty2CO6RPvW8dXMMAMD7PClL2rZsN8PaHl8S4GuYKgxYfXwTbdkfV7eEzIE3FPT3pO-sisO~~Ju39i4CvGz74axVLnmwiD-42r2C73gvhd8rD3d5eHsRLjw5j9w~rbv-7MRCkTV5dGQRBDv2UWf6b2n48zfKeGSrYcPkJAurMWyzUASaD1yoH5t8F-NzWAxlQx1zUAx2E7pGWt8JOFB~X4alCNKivQw__"tar.xz compression
Download for Linux 64-bit (tar.xz)File size: 529 MBmd5sum: 2756aa7e3b66139059667117546c41bbcurlwgetcurl -o spaceranger-3.1.3.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.3.tar.xz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=iZPstFz~V60gLT3qS0iCWXzoYaC6-zAoVONVt6ftjY8d-yQsq67TJHlLErL9comyLosU6wfF7uhuBcmqXfWbJB0nUOJLzdsymvTfN90VyCQy03PymB-VMYPX~~LGRbqPbYFv4X0DhmTg6W62GBpBpZRLP~r2ie~zli4SWBo1nFUQ338u73beJ--Rj7JOORwQCokjQ-9J8YH2G9gLSCOWm26dFK~0WBDkZv7CFZr9WF-pAnr-wPDxXUJpRDFlVwPwyaQe84a4ut5mxFvhhYoMnddlbJEBHJok6XdvsmQdUhJq8k5usMSck7BVNvtFW6z5tQdZxA6em2HgFZQuy23UVA__"
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Space Ranger v3.1.3 highlights
- Restored support for AVX1 machines.
- Other miscellaneous bug fixes.
Space Ranger 3.1.2 (Nov 18, 2024)
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Download for Linux 64-bit (tar.gz)File size: 867 MBmd5sum: 949088b1e2cc5bd03079b60a65b41d39curlwgetcurl -o spaceranger-3.1.2.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.2.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=UHpaFwR1AmHqONEozdM5~pza4CZXWPj5cbCUN-xEhA~dLwxnOsms91tWwfycLwh1BsZoogcUKgRDm9tGkyt~ag23mamiF8bqCyUYcNCjoyr4PmmWCxGmZp1aRuUCfdDQvHciZlkb3GUIJDtbbmBIc2yxciAQwtyZzhkqD68Hi0l3Xark9ABiZMce7K4htLpe0Ol9OrnOhgMm944oByrR2votqjL-hyoOJmaNdTXxt0SHuJWZG8wyMkp03czLQpphAodyGF5YUhdufk5ghSNOO~Nz-F8X32aEhoqmcroy3letMqgjgRQq2d2WkKKt4H-qomT3y8K~THjZzK6FHn4Exg__"tar.xz compression
Download for Linux 64-bit (tar.xz)File size: 552 MBmd5sum: 5a923ae250eea2974fd1cef7b2f9c1e2curlwgetcurl -o spaceranger-3.1.2.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.2.tar.xz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=hD~bqPqnM7rKJXfbHMZzracG8L9BUrt9dKFc8mi9Ty96~ZLG1ezVikX05qeLcCDw~VZUE5c9Jq5wprtxm~zUdCK9mMWJG~HmPB83VAH9JtRfPDhFW-MScxeMvrcgTQH1PudCIoLpHo1RJzEIDEzKE8oPqEPa~cNtpw5awdjJZMi1dNG2fsXP52FBu7fhWB3fFBdcdT7rzRQrBF-4KgoIM0tPU--M4z6thxAAzFPYz5pZZC68rL9ylsxethV7ZBOgbX3yTIeRoNS8JD6~azTXEPVXDQ~rnYE5OqUb21jn2683qm~TRHCkj8lP4DWZM4LU8MWl9t7jn9cH8uqqe8Ispw__"
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Space Ranger v3.1.2 highlights
- In Space Ranger v3.1.2, the pipeline automatically corrects Visium HD CytAssist images generated with instrument firmware v2.1 to account for a bug that affects registration between gene expression data and the microscope image.
- Adds metrics “Number of UMIs per mm squared of Tissue” and “Number of Reads per mm squared of Tissue” to the web_summary.html file.
Space Ranger 3.1.0 (Aug 28, 2024)
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Download for Linux 64-bit (tar.gz)File size: 827 MBmd5sum: 13a2c82adfb1f1efb737e2be121000d1curlwgetcurl -o spaceranger-3.1.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.0.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=Y24gGcoaxq8r28VYIPj~W9UN0wOsYvEXtNgtGcuKTy1o5yd7rdAbwLcj2YSklsrlncrhhAfxkVRPaKgx2eZfTwZIGjfOpkGB3xNzL8EQe~-60SXlT-EVFXqZMyuT3zCauH4u5LdHhew9OawJShb09VFoW7qXSZbI19ukzAvY5iuZvxmPPgVA9VBOXLz88qpzScRvwxzHJbikAAsLsfg2Vkmz50j8ECVVYN-jVY1HP0bgyORgduSydzpgo32~uZSV8qMxOWAaYfIS7dWgx6Jll0p8OsBR6pVeZTvvO-LISjW8NOFBia6BijLKNqd~m3EM0-0uosK4rtOeVUvYGd3GgA__"tar.xz compression
Download for Linux 64-bit (tar.xz)File size: 527 MBmd5sum: 28010d3724e9effc488470a961fe39fdcurlwgetcurl -o spaceranger-3.1.0.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.1.0.tar.xz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=DrOJnCU85EbZXA7ZAFcCcRaG7MGAKoUYo4-JqbkcdsNMoxOg5CIA1iGXlrEzedra0OmtTGZloXeIlMd8yv5InZgmbA0K6ehYoPoLeOc1ooHxSmt4TkVXGzgGzOZbbkLIoo2AVYvhmZDZ0jHCPAnP-gAy30MVidwEKeG1bAMeDxiG-h17N16t8P97b~W88bldZVRaoHqCmfJff6p0UuLoPMHlYBP9jxoJKrEfNIiTpDcG4X5gWvlYEdUKPQtLP-cGTPg1VWM0~Em5xPqG5~xwa-HEvwbZv0TeUCYMogX14WYna~Xsb~A9TgGmSQ2B56dMDZce5ZttPDwdgzGzxPpVOA__"
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Space Ranger 3.1.0 highlights
- In Space Ranger v3.1.0, the pipeline has been overhauled to significantly improve the CytAssist to microscope image registration process.
Space Ranger 3.0.1 (May 31, 2024)
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Download for Linux 64-bit (tar.gz)File size: 757 MBmd5sum: ae65e7ffdddbb966277b7d1776f8c63ccurlwgetcurl -o spaceranger-3.0.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.0.1.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=KiAwvV15rSqHWNmHGBeTwSbsVzCF~zCNKcm7k6hc0fv90K5z6wuNyx7ht3W5x05HWdzWPq~y9ihKGUF9fOWZvsvH~2Ez6hFKkz3H1frrq8gSZxEXxdkDIizC1h7zAo5OOiD-PQibwSoXtjwY0zKhYt9ZEfaXaL~MbGrkp4RcLKkMSujKVw5RUgy-AjeQXQWoRQSvPmiZ~xfD-zkSiAP4yWa~AeHRdeJoz-tICSRTcS3rhWQluz2W4rc~NkE~ruClg9nKVpMhhhBeBRaaWhfRuNVVDw~xYmRL-wHyTrUoOFZxTOyBB2xyQh13oDUZeNn8OhwqMegqRAapDkrijCNCdw__"tar.xz compression
Download for Linux 64-bit (tar.xz)File size: 481 MBmd5sum: 451495ee2074ff9adbac49ff8851ea1bcurlwgetcurl -o spaceranger-3.0.1.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.0.1.tar.xz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=ANMM5gC9vwtRbuF1qTdN~~jx8TSSfvYRfzHKQpyz0OYVKRJbcyqX1X-H~yBmpuY4YrAMP-qfYfqmXMOCl6VjSCOoILs3OE50K3yqKyoE0ZX-hecR0dPODZX-Moolsjrx~CC5Fgy3sV8dwlkvAFyZQOA-K5EmVu4uX31OMXqD5hsfM6F2ipep3-3SdxMV5iCNKmKjlVMIV8XBVi8HcgUGZAghrew~G5EsTfNlIB1BeMcqpqs6zYWmm3CzBTXrGPJkBiOi~BGZw5QpCYs~wqWDqpDIDdGuOCQkhW~GweL8u~pz9UNYaqsXVWTUllpWfGSy4i8bElCvFUFbOcdH3VfC3A__"
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Space Ranger 3.0.1 highlights
- Space Ranger v3.0 now supports Visium HD!
- Space Ranger v3.0.1 includes bug fixes and other improvements.
Space Ranger 3.0.0 (Mar 25, 2024)
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Download for Linux 64-bit (tar.gz)File size: 795 MBmd5sum: 19f4443f10cf94aff5768bd8968cb214curlwgetcurl -o spaceranger-3.0.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.0.0.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=lKWmdAMRucdCXaB7VBrOn7XvTz~suefitdbh-4-mTpM8B8WTJxe~U8p7ZPT4X0S~98e4LlkHDdgKPyPPZhyZUAB0UnFyZgjvLuijHufSUKbTIm6EI7AIztOWOeQ-7cp2D5voRKnX4YCAYQePsIE9bFCGbQyUIszb9OF6d~DGD~bk0YeqI~cyX4BGcsKpmc1IGOzVxTcSMejDTmFfa7HllncI2SWrDgMOztiAVy~Mnrs0RZNisFiFRVxzlZQAZpiEUM8YIcVftxzbKHvnPutL-EwSi~gQw4GEvhSFk8JBNozRDrxmBFHc5m9N~ruDQW4rImPBOsMNJBNn1iM9mmXJyQ__"tar.xz compression
Download for Linux 64-bit (tar.xz)File size: 507 MBmd5sum: cd02b83fe849672066c40a1734819432curlwgetcurl -o spaceranger-3.0.0.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-3.0.0.tar.xz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=DUeKKiI~hBP8HHjicOSf3PqynOg~zaeqRAv0FDFWsGb6LNqBcMa9YFaSovK8Yqo8CL7C0nB43uy4VXgYcAQSMKuMDJAA1z02wmcUE2AYZK~8TtDFB-GnB1hfFJ0iiooA4shQEi3q9WpOi4~j6SQQBjKJLXxRNVFMnDaP1p92eZ8sEsNtcCeTpcAbsXJmaejeU8Eicl-eLb8gPx8eaDbxnAswKnAZC68i-oILy2~1x7QQwRduweb66SKq3sRXv7EmmOFEKfqLAUooZqgMpZ677w4FAE6D2t1MVFRN-Zrq3Zg-ujBsu70hNzN6NcdIkTRf0haqCW914K2AvLC0lU~zXA__"
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Space Ranger 3.0.0 highlights
- Space Ranger now supports Visium HD!
Space Ranger 2.1.1 (Oct 2, 2023)
tar.gz compression
Download for Linux 64-bit (tar.gz)File size: 707 MBmd5sum: 0ef64524af2735bd2a0fc9eef5a605f6curlwgetcurl -o spaceranger-2.1.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.1.1.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=ZI-Uimilg7LiTihHktq4qyJqOxZ9CmbxO-eSYinUcDeBGxtUn0FSfmV9WX2KFAAkb0YoMjZcZYeMhYFZQhU2zBnR5KPWgC0oPW0et-p7KfLJn-kpz3tjQeQUPEIazRHczT3HiJFFc9B1qZkFssO30U1VU4~LaICf3zNdlr2nCpl7ECxFhNomOqzZO-KXTwnSGPtJ5Nyhmo8-trtkrBT95dB1~dJ-b002GcVqAnlcvGwar86C75xjTmDmQJXAP9wtaNJIewiDfqpL~KcvrJ-JOiQQozc2xgssaBWpOGw2c8J2kw4T-3hEjO1WUss82B-fq6nzl31OAsex0iTTrXMy5A__"tar.xz compression
Download for Linux 64-bit (tar.xz)File size: 465 MBmd5sum: e1204bb11b3589bc5d5af244b51bfc18curlwgetcurl -o spaceranger-2.1.1.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.1.1.tar.xz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=LCtdab1m41TLS0o2gCGb36XltNxfsnFcMs~pjB5J4VnzVODG-9RDmOTjVciocuj3nLS-JuQ3NKqQh0Y3BmlQjzYrePZvg0bY1EVTp~yX4SEicaedlIVM2PwzFJwafVIz41dI5glHKZzL99Ns805tw4ElbBHuDHLPlEHbu8X4X0p0zjVOgywbe-ah72E4EzSxGkAgnF1ZcFp9p6RKHlH~2sd0SEr3Tow711hmOsCOOp80c7mF00U5E8d-SsfYvBKNVcqps1~GerxMKhD9pmprq7qdODrVh-rVNYz8P2Fhl5~lxylsuSNXcIqQwARzm~mmw4BRhRxgfkh2Gegg9956Lg__"
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Space Ranger 2.1.1 highlights
- Fixed a bug where 8-bit grayscale images were inadvertently turned into 8-bit RGB color images for tissue registration.
Space Ranger 2.1.0 (May 16, 2023)
tar.gz compression
Download for Linux 64-bit (tar.gz)File size: 707 MBmd5sum: ee94c453c44770b2b69d6be46b948e3ecurlwgetcurl -o spaceranger-2.1.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.1.0.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=iit0~fGyr7nhTb5NyCPW6fHpSDniNo6b967hYnoWudwc9WXiU7gwQzXFSF1oRlF4lSVVCxQVrdj9C-oW1jKq4kEWFpHyUYbfCToywHvOYXFxIq9HxX3GItj7RN72CGOCDQMxGOU-GuaXzfKvj4hS1FfXyN6EXcjfaCUfmGlN-sn2QDPpP58SaalFnjzbvKUqLuwmoxgisrpTw9xSKfIwr4E0NmfWqAR1PlWMTbsXkD0q8xzkR~ECQUF9QpOzqP6WHk8n5uUTe16UaqVe5hbLIr9mKiyyQqiPrP~MuNdNGHxkdZSizGSiHRGVJvcMVbrKYEkU1zpdc8NzZ9I~daEOVw__"tar.xz compression
Download for Linux 64-bit (tar.xz)File size: 465 MBmd5sum: a0d90129a81c41cbdd728e23a4d25161curlwgetcurl -o spaceranger-2.1.0.tar.xz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.1.0.tar.xz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=A1SCkhj9K6Ii3M-S8vqFEi-Rcp0cdZ~AInq8K3yjcGao9I2lxmJxRq3Cow9qX~9ZeltqY6PnYAhz7Iw31DklGpFjKWLVk4GJu~WufCjtR~pEraC0zPUucB6SZGZCraQqyYpZ-Mf30GqG6wVkyc4d8nXrRcM2ITekJcdbEKwClFTxz3ygE0YecoIGFe9LNwJtxBCQu484puaSW8WRcOxZVyi99ivo9Vk2MdiaR5Smhq6TGjGQN0EYGolILQFs9l1yFOZMasPcasFXrUsJDpW744a4Ww61tlPqVwikGYE6PfJmZGZT9kPDLyEDzkPYCVhug4iuYwNGOMUTDgNNdP4Csw__"
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Space Ranger 2.1.0 highlights
- New feature: Gene + Protein Expression on Visium CytAssist.
- New feature: Reference-free spot deconvolution.
- Added support for bigtiff (btf, tf2, and tf8) image file extensions.
Space Ranger 2.0.1 (Dec 7, 2022)
tar.gz compression
Download for Linux 64-bit (tar.gz)File size: 664 MBmd5sum: 26151804338ae4d4b44151232bd64b50curlwgetcurl -o spaceranger-2.0.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.0.1.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=dmaKcP0vyP68JLPSyxP7WKz7Tf5Ohqgo7N5ckMgGmkbD7W9HS3KTvrh5-Unls1FrXQhIMjmVgLdzzSzwaWHYCx1Sl2qJ~7JJWFiGpJSSK74vCf8ZLLPp8LGoejEtYGzVGmQo7KUT0S6ToPobKKdOq6ZSKktoiOBoRwCkb1EqoQz26fgzGpD~ME0-8VWV-BL~-AXj97AkJexRekZMCwJe6a3RiQO6~xMeN0s~o~NjO6wsR7eA15zzWcbmKG6pl50Wm4qz16M3RJ~o8iSIhj7qo5lwyNSwiQp-PtOnEWFORd67mg8oGmyvoDN~KjkVTd1mkI42cAzQcofa-jJXPCnPfQ__"
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Space Ranger 2.0.1 highlights
- Reclustering workflow now supports generating a UMAP projection in addition to the t-SNE projection.
- Visium Image Manual Aligner now includes additional support for images with difficult to detect fiducials.
- A new Spatial Enrichment table which allows users to sort and filter features by their Moran’s I value for Visium Spatial Gene Expression is added.
Space Ranger 2.0.0 (Jul 18, 2022)
tar.gz compression
Download for Linux 64-bit (tar.gz)File size: 662 MBmd5sum: aec9ec128c7bc9fbf9fd6d31aa390d4ccurlwgetcurl -o spaceranger-2.0.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-2.0.0.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=YdwNfwmibdO3uI5aQ~s8J~CwPV-yrW3vfDFUk9yTe6GfJ51eJOFhXLR0ubMZIEuuwNcZcLeq44jtZLB9hjMyFVEhmVOiCpmODloeMg8WbCJVyJOXO2vyiomk1D~kWEvIZDybSpsgVhv5RWy-m4gtmNQ97GKCdb6OGBsTtXdgOQpIYdNSN5mHYYTTNyRPeNcdIsz7N6Y2RDsTWdyeLqWwI8d5KiCPVtWBBM9zbAdf54GDhEzitHW7k-e8ZK2enWtp~MheeG02CPutVzt5N~ooOcFOQrKEgVDVu27wOwKfAPegBjQigxsfaMsiI6NnTr61o5-WKC7tjgBiGdtGDxQscA__"
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Space Ranger 2.0.0 highlights
- Space Ranger now supports CytAssist-enabled Gene Expression analysis and includes image registration between the CytAssist image and the microscope image of the same tissue section.
- spaceranger count now quantifies fluorescence intensity in the image at every barcoded-spot location.
Space Ranger 1.3.1 (Nov 1, 2021)
tar.gz compression
Download for Linux 64-bit (tar.gz)File size: 1.2 GBmd5sum: c2eb73125d9ee731fa825ea3734be1b4curlwgetcurl -o spaceranger-1.3.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.3.1.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=ja6HK-7D~HRhNHfjNNHF~gaywDKE3YyEAkrtGXMBntX~gFx97YE1crel-VHuDAr2SK7M1R1LIOJbacxE6FKrE6-Jgj2C49Lnf9cSOkFfZKxVPbHuYzQnNCN0-yIi1~AAnowKF0t8gn9mKBRJPwWs7HWmkR~Je9MgoVf6HeZX-ERSIfWuOsNJIr8gtgWJwxw4hhFZers36I~wxuF9dn~iAoq~lEMA5bZFlHFStFGNrjCHnwP3DHRYv7YXxX3pogWEx0CuvfddRLiNtqVOsoV5JbEObSOVzoLbfxY2Erp4pxPmRbPwhBIucJiEUPzidRyYPFqeC5CYWuwEJa0EHda5rw__"
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Space Ranger 1.3.1 highlights
- Adds an alert if image alignment would have produced a different result if the --reorient-images option was specified.
- Update warning for low fraction of reads confidently mapped to the probe set to be more informative.
- Unsets additional sysconfig environment variables prior to pipeline execution, which may otherwise interfere with the pipeline conda environment.
- Fixes an issue with mkfastq when bcl2fastq requires LD_LIBRARY_PATH.
Space Ranger 1.3.0 (Jun 9, 2021)
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Download for Linux 64-bit (tar.gz)File size: 1.2 GBmd5sum: ede7f98db5adf7785e35ae0508c48f74curlwgetcurl -o spaceranger-1.3.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.3.0.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=bUHIcnMsZCHdhqygPhCgVMvAhjZHftbS0kYKfqdah~IkJU2szH5k7UVNa2qCPuMCIeIQ922wYI4zMrptvb7FAd9xGQojjA7S37Cs2mricVUoyjioPctoX~mb7uDqrIpvYmeiowAEwcSHg~Panln0xR5lEkD17oXyP-YQ0CCqtjFUCyDrvXCJocDt6Pjaayar-FtLBEsCPfng~JvHyKwesjw8LlESJEGZ5jtAM-5wuSolpYErMa6~lkHQgHrZYJstQVEqjrEsY1f0rnsRa9u864ck8C4fLBsVLl2VNXhH5yb3lIwkaZ7VjEI8i1wNiCZ37E3GBqoJzwKwUEmtrmpiyQ__"
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Space Ranger 1.3.0 highlights
- The recommended operating systems for Space Ranger 1.3.0 are CentOS 7 or Ubuntu 14 Linux variants or newer. CentOS 6 and Ubuntu 12 are still supported but have been deprecated.
- Gene Expression analysis from formalin fixed paraffin embedded (FFPE) samples is now available in Space Ranger and is invoked by specifying the --probe-set option when running the spaceranger count command. Space Ranger 1.3.0 or later is required to analyze FFPE data.
- Space Ranger now calculates the Moran's I spatial autocorrelation metric on a per-gene basis.
Space Ranger 1.2.2 (Feb 3, 2021)
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Download for Linux 64-bit (tar.gz)File size: 1.2 GBmd5sum: 3280a085714ce7c894dc14b76312bcdacurlwgetcurl -o spaceranger-1.2.2.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.2.2.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=GtyufoB2mE8QUNLmemJTUupTB6g1Wm55FVHym6mUsy-Mu0R5B1iYN02pcQ-7oyxJE40wHWU8hHbqBInPs1IjXlf9ytMdy~h3GwumWw68xHjQxAOZTzGhfKrzLe9IgMTJ5wkc8QngaHDzgdIEVP3NVaSTOJKPiiok5DtsU0X23ZhtDuNkvrdkpBwpbdUv0ZGzDIMi06IrSwbio1R0dUErTkWCLuCQXP4iyaUH3FhFFQRxfqOJdzCRHb7LeSZX8aD-4yP5-qNHloKJ5Dv2pf9j-Vug~XLQc86SZt8BjyYvNs7PUyjCejzcMxwB-3tSNVsAn4E3ehE53qqqIDWgWOo3ZA__"
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Space Ranger 1.2.2 highlights
- Adds support for pyramid TIFFs, or TIFFs with multiple pages of the same image at different resolutions.
- Fixes an issue where targeted samples run against new references would fail preflight.
Space Ranger 1.2.1 (Dec 10, 2020)
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Download for Linux 64-bit (tar.gz)File size: 1.2 GBmd5sum: c24ecfc95c5e4f1c268354c5934da98ecurlwgetcurl -o spaceranger-1.2.1.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.2.1.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=Bmgf-3DPR2Ak2U0s8NBhFW0xDyX6aaeMTfmoyqrAqilWWED7eNK4VZ9Kcx1u32ZVQwBblrCrQRtTx6FT7AcRK4OcurbRM9eu69I4MMBrn9zY9tMQnvUo2~PNStD8nJ~s-2gWpeJFbRzJcTsTiwVx79np1fAV8f9aRgT8Zy2j6WrExLvSVESRm9VGf03PCJwM05QbGF1h87GRr4yfr7RgE1RU3Svb89I0ezGVdhh1b1OJNHGAqZGuIJA78ZDKgVMdQVUUZD7Y3eiV5WBjQEs2INdXJg-sNs0qHIKoHAWdP3xsRC9ufXqBP7Tz1C8-MUHzDxpIj~iZzYGb2ZHx7BA-vQ__"
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Space Ranger 1.2.1 highlights
- Fixed an issue in aggr where files would fail to be copied on NFSv4 File Systems.
- Disables multithreading in mkref to address an issue where mkref would fail on hardware without AVX support.
- Better error handling if the pipeline fails due to a missing .env.json file due to an incomplete copy of the application folder.
Space Ranger 1.2.0 (Oct 27, 2020)
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Download for Linux 64-bit (tar.gz)File size: 1.2 GBmd5sum: fc21902700779111afc3c813bbb0ff5ecurlwgetcurl -o spaceranger-1.2.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.2.0.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=cBpHhbwiWhfsIbufGOKl0ZGpUfSl77fiez0VrIuit1QBsmFPwT1TRDsqbcl2a5Jm~ceS2IAvU47vLELqDnLwBEfe6ukwEPK4GkAJstPrFQP2lj2EN-GM7ykE03zMj9FewAHJ5dFOM4Enxa-po~HA7lB9K4uLWD3qUROrk-8x0b64ACz7832viUT7iOz1IxVZzNxVkXvi1W6STqTZ1-Q~K5a8YdalVO~REryybBBYUtP4mTrfo03qIewRXw~kK8r~GQrxy~JevC0Kb73yqG8VTmiGu4VwH9E6tbeGDaQ4TVRkBtUqiPIEuPL4HtnsvXQW9l6z4cuEeC0uYvO8vFQanQ__"
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Space Ranger 1.2.0 highlights
- Targeted Gene Expression analysis is available in Space Ranger 1.2.
- Introduces the new spaceranger targeted-compare pipeline for direct comparative analysis of matched parent Whole Transcriptome Amplification (WTA) and Targeted Gene Expression datasets.
- Includes the spaceranger targeted-depth subcommand to estimate sequencing depths appropriate for Spatial Targeted Gene Expression experiments.
- A new command line option, --no-bam, instructs the pipeline not to construct BAM files.
Space Ranger 1.1.0 (Jun 23, 2020)
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Download for Linux 64-bit (tar.gz)File size: 1.2 GBmd5sum: 708b93997295db31bc457b3d9af79ca2curlwgetcurl -o spaceranger-1.1.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.1.0.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=IMGlGKoxFAMArVlrQ9si3QJuW~Q6lUcBIm8Pn-kVlcCJPmEz0iCmRXD0spypj9a5Ok6~yK3cFLhsauEibLbDbeicEGhdw54CGiSzFNP8RLY8ZvpCJmfuUCoLutY8TJcopLqPebC4EFEWQKliIzkpB6gJEfMHmlaDR7LJrzDf4SfZa4Lto3CGV7X0iVJdH1WZpTt6r3-tfWZIHeP0slHeGaiDdKBUQyC8QavoC0NhOOfErXGYDsn0YSQdMCfUsTsWElLfahryyXvgB~eeJAlUGmeXUbgQYL3qJIFztMCeFukvaQs5YwOX2jPdOsQPNILh0uOXIGAZS~6bH7xtalMP8w__"
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Space Ranger 1.1.0 highlights
- Support for fluorescence imaging input such as IHC/IF.
- Aggregation of multiple datasets.
- Optional automatic rotation of slide images.
Space Ranger 1.0.0 (Dec 2, 2019)
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Download for Linux 64-bit (tar.gz)File size: 1.3 GBmd5sum: 5cc7fb86d0cbff7df687b11575efb7cbcurlwgetcurl -o spaceranger-1.0.0.tar.gz "https://cf.10xgenomics.com/releases/spatial-exp/spaceranger-1.0.0.tar.gz?Expires=1770486312&Key-Pair-Id=APKAI7S6A5RYOXBWRPDA&Signature=aK3t04BReVcdtXQIMPKGfkLHN6a1iv7aQ9n7pxG3266IRHAPBFuGIviyHYq8tqa6mQKvCIsnhBAVc5qeH3ARVW5CZ06KBxHvQqyN~SHEc9y4bJbtb6Yp8~~76Q2SgbYwrobe97zGq9gedtXHam6opQw7U3Q17CCiM8yYjVV3ur4TabpxprRNND-vfKqLs1dEW7SOEx--dtm6dMxiTxI658zWZe57tgINcP48uSUzG6sY45yOlPk5EZV3dGWrZUtwTjrPMU5RwjruQX7WG-SkvpxNmtG3v8MILh5Et5v5MsxqC4nWqmUnN5VWy1hEXkEYMFpc9rJK39ZGru7dMc0PNw__"
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